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P34741

- SDC2_HUMAN

UniProt

P34741 - SDC2_HUMAN

Protein

Syndecan-2

Gene

SDC2

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 136 (01 Oct 2014)
      Sequence version 2 (21 Aug 2007)
      Previous versions | rss
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    Functioni

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

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei142 – 1432Cleavage of ectodomainSequence Analysis

    GO - Molecular functioni

    1. PDZ domain binding Source: BHF-UCL
    2. protein binding Source: IntAct

    GO - Biological processi

    1. carbohydrate metabolic process Source: Reactome
    2. chondroitin sulfate metabolic process Source: Reactome
    3. dendrite morphogenesis Source: Ensembl
    4. extracellular matrix organization Source: Reactome
    5. glycosaminoglycan biosynthetic process Source: Reactome
    6. glycosaminoglycan catabolic process Source: Reactome
    7. glycosaminoglycan metabolic process Source: Reactome
    8. phototransduction, visible light Source: Reactome
    9. regulation of dendrite morphogenesis Source: UniProtKB
    10. response to caffeine Source: Ensembl
    11. response to hypoxia Source: Ensembl
    12. retinoid metabolic process Source: Reactome
    13. small molecule metabolic process Source: Reactome
    14. wound healing Source: Ensembl

    Keywords - Biological processi

    Differentiation, Neurogenesis

    Enzyme and pathway databases

    ReactomeiREACT_120752. HS-GAG degradation.
    REACT_121248. HS-GAG biosynthesis.
    REACT_121408. A tetrasaccharide linker sequence is required for GAG synthesis.
    REACT_163942. Syndecan interactions.
    REACT_24968. Retinoid metabolism and transport.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Syndecan-2
    Short name:
    SYND2
    Alternative name(s):
    Fibroglycan
    Heparan sulfate proteoglycan core protein
    Short name:
    HSPG
    CD_antigen: CD362
    Gene namesi
    Name:SDC2
    Synonyms:HSPG1
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 8

    Organism-specific databases

    HGNCiHGNC:10659. SDC2.

    Subcellular locationi

    GO - Cellular componenti

    1. Golgi lumen Source: Reactome
    2. integral component of membrane Source: UniProtKB-KW
    3. lysosomal lumen Source: Reactome
    4. neuronal cell body Source: Ensembl
    5. plasma membrane Source: Reactome

    Keywords - Cellular componenti

    Membrane

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA35589.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 1818Sequence AnalysisAdd
    BLAST
    Chaini19 – 201183Syndecan-2PRO_0000033503Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi41 – 411O-linked (Xyl...) (heparan sulfate)Sequence Analysis
    Glycosylationi55 – 551O-linked (Xyl...) (heparan sulfate)Sequence Analysis
    Glycosylationi57 – 571O-linked (Xyl...) (heparan sulfate)Sequence Analysis
    Glycosylationi101 – 1011O-linked (GalNAc...)1 Publication
    Modified residuei187 – 1871Phosphoserine1 Publication

    Post-translational modificationi

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

    Keywords - PTMi

    Glycoprotein, Heparan sulfate, Phosphoprotein, Proteoglycan

    Proteomic databases

    MaxQBiP34741.
    PaxDbiP34741.
    PRIDEiP34741.

    PTM databases

    PhosphoSiteiP34741.

    Expressioni

    Gene expression databases

    ArrayExpressiP34741.
    BgeeiP34741.
    CleanExiHS_SDC2.
    GenevestigatoriP34741.

    Organism-specific databases

    HPAiCAB025123.
    HPA044416.

    Interactioni

    Subunit structurei

    Interacts (via cytoplasmic domain) with SARM1.By similarity

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    CASKO149362EBI-1172957,EBI-1215506
    NF1P213594EBI-1172957,EBI-1172917

    Protein-protein interaction databases

    BioGridi112285. 24 interactions.
    DIPiDIP-29943N.
    IntActiP34741. 12 interactions.
    MINTiMINT-1536313.
    STRINGi9606.ENSP00000307046.

    Structurei

    3D structure databases

    ProteinModelPortaliP34741.
    SMRiP34741. Positions 170-201.
    ModBaseiSearch...
    MobiDBiSearch...

    Topological domain

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Topological domaini19 – 144126ExtracellularSequence AnalysisAdd
    BLAST
    Topological domaini170 – 20132CytoplasmicSequence AnalysisAdd
    BLAST

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei145 – 16925HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the syndecan proteoglycan family.Curated

    Keywords - Domaini

    Signal, Transmembrane, Transmembrane helix

    Phylogenomic databases

    eggNOGiNOG85596.
    HOGENOMiHOG000263414.
    HOVERGENiHBG004501.
    InParanoidiP34741.
    KOiK16336.
    OMAiKMPAQTK.
    OrthoDBiEOG7GJ6G5.
    PhylomeDBiP34741.
    TreeFamiTF320463.

    Family and domain databases

    InterProiIPR003585. Neurexin-like.
    IPR001050. Syndecan.
    IPR027789. Syndecan/Neurexin_dom.
    [Graphical view]
    PANTHERiPTHR10915. PTHR10915. 1 hit.
    PfamiPF01034. Syndecan. 1 hit.
    [Graphical view]
    SMARTiSM00294. 4.1m. 1 hit.
    [Graphical view]
    PROSITEiPS00964. SYNDECAN. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    P34741-1 [UniParc]FASTAAdd to Basket

    « Hide

    MRRAWILLTL GLVACVSAES RAELTSDKDM YLDNSSIEEA SGVYPIDDDD    50
    YASASGSGAD EDVESPELTT SRPLPKILLT SAAPKVETTT LNIQNKIPAQ 100
    TKSPEETDKE KVHLSDSERK MDPAEEDTNV YTEKHSDSLF KRTEVLAAVI 150
    AGGVIGFLFA IFLILLLVYR MRKKDEGSYD LGERKPSSAA YQKAPTKEFY 200
    A 201
    Length:201
    Mass (Da):22,160
    Last modified:August 21, 2007 - v2
    Checksum:i7DA4159D54741054
    GO

    Sequence cautioni

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

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti150 – 1501I → T in BAB15150. (PubMed:14702039)Curated

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti59 – 591A → T.1 Publication
    Corresponds to variant rs3816208 [ dbSNP | Ensembl ].
    VAR_034675
    Natural varianti71 – 711S → T.2 Publications
    Corresponds to variant rs1042381 [ dbSNP | Ensembl ].
    VAR_034676

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    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.
    CCDSiCCDS6272.1.
    PIRiA33880.
    RefSeqiNP_002989.2. NM_002998.3.
    UniGeneiHs.1501.
    Hs.598247.

    Genome annotation databases

    EnsembliENST00000302190; ENSP00000307046; ENSG00000169439.
    GeneIDi6383.
    KEGGihsa:6383.
    UCSCiuc003yhv.1. human.

    Polymorphism databases

    DMDMi158962336.

    Keywords - Coding sequence diversityi

    Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    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 .
    CCDSi CCDS6272.1.
    PIRi A33880.
    RefSeqi NP_002989.2. NM_002998.3.
    UniGenei Hs.1501.
    Hs.598247.

    3D structure databases

    ProteinModelPortali P34741.
    SMRi P34741. Positions 170-201.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 112285. 24 interactions.
    DIPi DIP-29943N.
    IntActi P34741. 12 interactions.
    MINTi MINT-1536313.
    STRINGi 9606.ENSP00000307046.

    Chemistry

    DrugBanki DB00020. Sargramostim.

    PTM databases

    PhosphoSitei P34741.

    Polymorphism databases

    DMDMi 158962336.

    Proteomic databases

    MaxQBi P34741.
    PaxDbi P34741.
    PRIDEi P34741.

    Protocols and materials databases

    DNASUi 6383.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000302190 ; ENSP00000307046 ; ENSG00000169439 .
    GeneIDi 6383.
    KEGGi hsa:6383.
    UCSCi uc003yhv.1. human.

    Organism-specific databases

    CTDi 6383.
    GeneCardsi GC08P097575.
    HGNCi HGNC:10659. SDC2.
    HPAi CAB025123.
    HPA044416.
    MIMi 142460. gene.
    neXtProti NX_P34741.
    PharmGKBi PA35589.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG85596.
    HOGENOMi HOG000263414.
    HOVERGENi HBG004501.
    InParanoidi P34741.
    KOi K16336.
    OMAi KMPAQTK.
    OrthoDBi EOG7GJ6G5.
    PhylomeDBi P34741.
    TreeFami TF320463.

    Enzyme and pathway databases

    Reactomei REACT_120752. HS-GAG degradation.
    REACT_121248. HS-GAG biosynthesis.
    REACT_121408. A tetrasaccharide linker sequence is required for GAG synthesis.
    REACT_163942. Syndecan interactions.
    REACT_24968. Retinoid metabolism and transport.

    Miscellaneous databases

    GeneWikii SDC2.
    GenomeRNAii 6383.
    NextBioi 24788.
    PROi P34741.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi P34741.
    Bgeei P34741.
    CleanExi HS_SDC2.
    Genevestigatori P34741.

    Family and domain databases

    InterProi IPR003585. Neurexin-like.
    IPR001050. Syndecan.
    IPR027789. Syndecan/Neurexin_dom.
    [Graphical view ]
    PANTHERi PTHR10915. PTHR10915. 1 hit.
    Pfami PF01034. Syndecan. 1 hit.
    [Graphical view ]
    SMARTi SM00294. 4.1m. 1 hit.
    [Graphical view ]
    PROSITEi PS00964. SYNDECAN. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    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.
      , 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.
      , 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. 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. 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].

    Entry informationi

    Entry nameiSDC2_HUMAN
    AccessioniPrimary (citable) accession number: P34741
    Secondary accession number(s): B3KQA3, Q6PIS6, Q9H6V1
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 1994
    Last sequence update: August 21, 2007
    Last modified: October 1, 2014
    This is version 136 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (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.

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Human cell differentiation molecules
      CD nomenclature of surface proteins of human leucocytes and list of entries
    2. Human chromosome 8
      Human chromosome 8: entries, gene names and cross-references to MIM
    3. Human entries with polymorphisms or disease mutations
      List of human entries with polymorphisms or disease mutations
    4. Human polymorphisms and disease mutations
      Index of human polymorphisms and disease mutations
    5. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    6. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3