Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Basket 0
(max 400 entries)x

Your basket is currently empty.

Select item(s) and click on "Add to basket" to create your own collection here
(400 entries max)

O09126

- SEM4D_MOUSE

UniProt

O09126 - SEM4D_MOUSE

Protein

Semaphorin-4D

Gene

Sema4d

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
    • BLAST
    • Align
    • Format
    • Add to basket
    • History
      Entry version 124 (01 Oct 2014)
      Sequence version 2 (27 Jul 2011)
      Previous versions | rss
    • Help video
    • Feedback
    • Comment

    Functioni

    Cell surface receptor for PLXN1B and PLXNB2 that plays an important role in cell-cell signaling. Promotes reorganization of the actin cytoskeleton and plays a role in axonal growth cone guidance in the developing central nervous system. Regulates dendrite and axon branching and morphogenesis. Promotes the migration of cerebellar granule cells and of endothelial cells. Plays a role in the immune system; induces B-cells to aggregate and improves their viability (in vitro). Promotes signaling via SRC and PTK2B/PYK2, which then mediates activation of phosphatidylinositol 3-kinase and of the AKT1 signaling cascade. Interaction with PLXNB1 mediates activation of RHOA By similarity.By similarity

    GO - Molecular functioni

    1. receptor binding Source: MGI
    2. semaphorin receptor binding Source: BHF-UCL
    3. transmembrane signaling receptor activity Source: UniProtKB

    GO - Biological processi

    1. leukocyte aggregation Source: UniProtKB
    2. negative regulation of alkaline phosphatase activity Source: BHF-UCL
    3. negative regulation of cell adhesion Source: UniProtKB
    4. negative regulation of osteoblast differentiation Source: BHF-UCL
    5. negative regulation of peptidyl-tyrosine phosphorylation Source: BHF-UCL
    6. negative regulation of transcription from RNA polymerase II promoter Source: BHF-UCL
    7. ossification involved in bone maturation Source: BHF-UCL
    8. positive regulation of axonogenesis Source: MGI
    9. positive regulation of cell migration Source: BHF-UCL
    10. positive regulation of collateral sprouting Source: UniProtKB
    11. positive regulation of peptidyl-tyrosine phosphorylation Source: BHF-UCL
    12. positive regulation of phosphatidylinositol 3-kinase signaling Source: UniProtKB
    13. positive regulation of protein phosphorylation Source: UniProtKB
    14. positive regulation of Rho GTPase activity Source: BHF-UCL
    15. regulation of cell projection organization Source: UniProtKB
    16. regulation of cell shape Source: UniProtKB
    17. regulation of dendrite morphogenesis Source: UniProtKB
    18. semaphorin-plexin signaling pathway Source: UniProtKB
    19. semaphorin-plexin signaling pathway involved in bone trabecula morphogenesis Source: BHF-UCL

    Keywords - Molecular functioni

    Developmental protein

    Keywords - Biological processi

    Differentiation, Neurogenesis

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Semaphorin-4D
    Alternative name(s):
    M-Sema G
    Semaphorin-C-like 2
    Semaphorin-J
    Short name:
    Sema J
    CD_antigen: CD100
    Gene namesi
    Name:Sema4d
    Synonyms:Semacl2, Semaj
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 13

    Organism-specific databases

    MGIiMGI:109244. Sema4d.

    Subcellular locationi

    GO - Cellular componenti

    1. extracellular space Source: BHF-UCL
    2. integral component of plasma membrane Source: Ensembl
    3. membrane Source: BHF-UCL

    Keywords - Cellular componenti

    Cell membrane, Membrane

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 2323Sequence AnalysisAdd
    BLAST
    Chaini24 – 861838Semaphorin-4DPRO_0000032328Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi49 – 491N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi77 – 771N-linked (GlcNAc...)1 Publication
    Disulfide bondi97 ↔ 108By similarity
    Disulfide bondi126 ↔ 135By similarity
    Glycosylationi139 – 1391N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi191 – 1911N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi257 ↔ 370By similarity
    Disulfide bondi281 ↔ 326By similarity
    Glycosylationi379 – 3791N-linked (GlcNAc...)1 Publication
    Glycosylationi419 – 4191N-linked (GlcNAc...)1 Publication
    Disulfide bondi503 ↔ 520By similarity
    Disulfide bondi509 ↔ 553By similarity
    Disulfide bondi512 ↔ 529By similarity
    Disulfide bondi576 ↔ 624By similarity
    Glycosylationi613 – 6131N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi632 – 6321N-linked (GlcNAc...)Sequence Analysis

    Keywords - PTMi

    Disulfide bond, Glycoprotein

    Proteomic databases

    PaxDbiO09126.
    PRIDEiO09126.

    PTM databases

    PhosphoSiteiO09126.

    Expressioni

    Tissue specificityi

    Strongly expressed in lymphoid tissues, especially in the thymus, as well as in the nervous tissues.

    Gene expression databases

    BgeeiO09126.
    GenevestigatoriO09126.

    Interactioni

    Subunit structurei

    Homodimer. Binds PLXNB1 By similarity. Interacts with PLXNB2.By similarity1 Publication

    Protein-protein interaction databases

    IntActiO09126. 1 interaction.
    MINTiMINT-4996140.
    STRINGi10090.ENSMUSP00000021900.

    Structurei

    3D structure databases

    ProteinModelPortaliO09126.
    SMRiO09126. Positions 24-648.
    ModBaseiSearch...
    MobiDBiSearch...

    Topological domain

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Topological domaini24 – 733710ExtracellularSequence AnalysisAdd
    BLAST
    Topological domaini755 – 861107CytoplasmicSequence AnalysisAdd
    BLAST

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei734 – 75421HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini24 – 500477SemaPROSITE-ProRule annotationAdd
    BLAST
    Domaini502 – 55150PSIAdd
    BLAST
    Domaini555 – 63682Ig-like C2-typeAdd
    BLAST

    Sequence similaritiesi

    Belongs to the semaphorin family.Curated
    Contains 1 PSI domain.Curated
    Contains 1 Sema domain.PROSITE-ProRule annotation

    Keywords - Domaini

    Immunoglobulin domain, Signal, Transmembrane, Transmembrane helix

    Phylogenomic databases

    eggNOGiNOG326211.
    GeneTreeiENSGT00560000076864.
    HOGENOMiHOG000116087.
    HOVERGENiHBG061627.
    InParanoidiQ6GTM9.
    KOiK06521.
    OMAiIQDMSGD.
    OrthoDBiEOG71K62C.
    TreeFamiTF316102.

    Family and domain databases

    Gene3Di2.130.10.10. 1 hit.
    2.60.40.10. 1 hit.
    InterProiIPR007110. Ig-like_dom.
    IPR013783. Ig-like_fold.
    IPR003599. Ig_sub.
    IPR016201. Plexin-like_fold.
    IPR002165. Plexin_repeat.
    IPR001627. Semap_dom.
    IPR027231. Semaphorin.
    IPR015943. WD40/YVTN_repeat-like_dom.
    [Graphical view]
    PANTHERiPTHR11036. PTHR11036. 1 hit.
    PfamiPF01437. PSI. 1 hit.
    PF01403. Sema. 1 hit.
    [Graphical view]
    SMARTiSM00409. IG. 1 hit.
    SM00423. PSI. 1 hit.
    SM00630. Sema. 1 hit.
    [Graphical view]
    SUPFAMiSSF101912. SSF101912. 1 hit.
    SSF103575. SSF103575. 1 hit.
    PROSITEiPS50835. IG_LIKE. 1 hit.
    PS51004. SEMA. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    O09126-1 [UniParc]FASTAAdd to Basket

    « Hide

    MRMCAPVRGL FLALVVVLRT AVAFAPVPRL TWEHGEVGLV QFHKPGIFNY    50
    SALLMSEDKD TLYVGAREAV FAVNALNISE KQHEVYWKVS EDKKSKCAEK 100
    GKSKQTECLN YIRVLQPLSS TSLYVCGTNA FQPTCDHLNL TSFKFLGKSE 150
    DGKGRCPFDP AHSYTSVMVG GELYSGTSYN FLGSEPIISR NSSHSPLRTE 200
    YAIPWLNEPS FVFADVIQKS PDGPEGEDDK VYFFFTEVSV EYEFVFKLMI 250
    PRVARVCKGD QGGLRTLQKK WTSFLKARLI CSKPDSGLVF NILQDVFVLR 300
    APGLKEPVFY AVFTPQLNNV GLSAVCAYTL ATVEAVFSRG KYMQSATVEQ 350
    SHTKWVRYNG PVPTPRPGAC IDSEARAANY TSSLNLPDKT LQFVKDHPLM 400
    DDSVTPIDNR PKLIKKDVNY TQIVVDRTQA LDGTFYDVMF ISTDRGALHK 450
    AVILTKEVHV IEETQLFRDS EPVLTLLLSS KKGRKFVYAG SNSGVVQAPL 500
    AFCEKHGSCE DCVLARDPYC AWSPAIKACV TLHQEEASSR GWIQDMSGDT 550
    SSCLDKSKES FNQHFFKHGG TAELKCFQKS NLARVVWKFQ NGELKAASPK 600
    YGFVGRKHLL IFNLSDGDSG VYQCLSEERV RNKTVSQLLA KHVLEVKMVP 650
    RTPPSPTSED AQTEGSKITS KMPVASTQGS SPPTPALWAT SPRAATLPPK 700
    SSSGTSCEPK MVINTVPQLH SEKTVYLKSS DNRLLMSLLL FIFVLFLCLF 750
    SYNCYKGYLP GQCLKFRSAL LLGKKTPKSD FSDLEQSVKE TLVEPGSFSQ 800
    QNGDHPKPAL DTGYETEQDT ITSKVPTDRE DSQRIDELSA RDKPFDVKCE 850
    LKFADSDADG D 861
    Length:861
    Mass (Da):95,640
    Last modified:July 27, 2011 - v2
    Checksum:iB962D4E4CF37FFD9
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti470 – 4701S → F in AAC52964. (PubMed:8969198)Curated
    Sequence conflicti661 – 6611A → V in AAC52964. (PubMed:8969198)Curated
    Sequence conflicti675 – 6751A → G in AAC52964. (PubMed:8969198)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U69535 mRNA. Translation: AAC52964.1.
    CH466546 Genomic DNA. Translation: EDL41105.1.
    CH466546 Genomic DNA. Translation: EDL41106.1.
    CH466546 Genomic DNA. Translation: EDL41107.1.
    BC049780 mRNA. Translation: AAH49780.2.
    CCDSiCCDS26514.1.
    RefSeqiNP_001268809.1. NM_001281880.1.
    NP_038688.2. NM_013660.4.
    XP_006516945.1. XM_006516882.1.
    XP_006516946.1. XM_006516883.1.
    XP_006516947.1. XM_006516884.1.
    XP_006516948.1. XM_006516885.1.
    XP_006516949.1. XM_006516886.1.
    XP_006516950.1. XM_006516887.1.
    XP_006516951.1. XM_006516888.1.
    XP_006516952.1. XM_006516889.1.
    XP_006516953.1. XM_006516890.1.
    UniGeneiMm.33903.

    Genome annotation databases

    EnsembliENSMUST00000021900; ENSMUSP00000021900; ENSMUSG00000021451.
    ENSMUST00000110039; ENSMUSP00000105666; ENSMUSG00000021451.
    ENSMUST00000110040; ENSMUSP00000105667; ENSMUSG00000021451.
    GeneIDi20354.
    KEGGimmu:20354.
    UCSCiuc007qmn.1. mouse.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U69535 mRNA. Translation: AAC52964.1 .
    CH466546 Genomic DNA. Translation: EDL41105.1 .
    CH466546 Genomic DNA. Translation: EDL41106.1 .
    CH466546 Genomic DNA. Translation: EDL41107.1 .
    BC049780 mRNA. Translation: AAH49780.2 .
    CCDSi CCDS26514.1.
    RefSeqi NP_001268809.1. NM_001281880.1.
    NP_038688.2. NM_013660.4.
    XP_006516945.1. XM_006516882.1.
    XP_006516946.1. XM_006516883.1.
    XP_006516947.1. XM_006516884.1.
    XP_006516948.1. XM_006516885.1.
    XP_006516949.1. XM_006516886.1.
    XP_006516950.1. XM_006516887.1.
    XP_006516951.1. XM_006516888.1.
    XP_006516952.1. XM_006516889.1.
    XP_006516953.1. XM_006516890.1.
    UniGenei Mm.33903.

    3D structure databases

    ProteinModelPortali O09126.
    SMRi O09126. Positions 24-648.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi O09126. 1 interaction.
    MINTi MINT-4996140.
    STRINGi 10090.ENSMUSP00000021900.

    PTM databases

    PhosphoSitei O09126.

    Proteomic databases

    PaxDbi O09126.
    PRIDEi O09126.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000021900 ; ENSMUSP00000021900 ; ENSMUSG00000021451 .
    ENSMUST00000110039 ; ENSMUSP00000105666 ; ENSMUSG00000021451 .
    ENSMUST00000110040 ; ENSMUSP00000105667 ; ENSMUSG00000021451 .
    GeneIDi 20354.
    KEGGi mmu:20354.
    UCSCi uc007qmn.1. mouse.

    Organism-specific databases

    CTDi 10507.
    MGIi MGI:109244. Sema4d.

    Phylogenomic databases

    eggNOGi NOG326211.
    GeneTreei ENSGT00560000076864.
    HOGENOMi HOG000116087.
    HOVERGENi HBG061627.
    InParanoidi Q6GTM9.
    KOi K06521.
    OMAi IQDMSGD.
    OrthoDBi EOG71K62C.
    TreeFami TF316102.

    Miscellaneous databases

    ChiTaRSi SEMA4D. mouse.
    NextBioi 298221.
    PROi O09126.
    SOURCEi Search...

    Gene expression databases

    Bgeei O09126.
    Genevestigatori O09126.

    Family and domain databases

    Gene3Di 2.130.10.10. 1 hit.
    2.60.40.10. 1 hit.
    InterProi IPR007110. Ig-like_dom.
    IPR013783. Ig-like_fold.
    IPR003599. Ig_sub.
    IPR016201. Plexin-like_fold.
    IPR002165. Plexin_repeat.
    IPR001627. Semap_dom.
    IPR027231. Semaphorin.
    IPR015943. WD40/YVTN_repeat-like_dom.
    [Graphical view ]
    PANTHERi PTHR11036. PTHR11036. 1 hit.
    Pfami PF01437. PSI. 1 hit.
    PF01403. Sema. 1 hit.
    [Graphical view ]
    SMARTi SM00409. IG. 1 hit.
    SM00423. PSI. 1 hit.
    SM00630. Sema. 1 hit.
    [Graphical view ]
    SUPFAMi SSF101912. SSF101912. 1 hit.
    SSF103575. SSF103575. 1 hit.
    PROSITEi PS50835. IG_LIKE. 1 hit.
    PS51004. SEMA. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Identification of a novel transmembrane semaphorin expressed on lymphocytes."
      Furuyama T., Inagaki S., Kosugi A., Noda S., Saitoh S., Ogata M., Iwahashi Y., Miyazaki N., Hamaoka T., Tohyama M.
      J. Biol. Chem. 271:33376-33381(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Strain: C57BL/6.
      Tissue: Brain.
    2. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
      Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    3. "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: Limb.
    4. "Plexin-B2, but not Plexin-B1, critically modulates neuronal migration and patterning of the developing nervous system in vivo."
      Deng S., Hirschberg A., Worzfeld T., Penachioni J.Y., Korostylev A., Swiercz J.M., Vodrazka P., Mauti O., Stoeckli E.T., Tamagnone L., Offermanns S., Kuner R.
      J. Neurosci. 27:6333-6347(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INTERACTION WITH PLXNB2.
    5. "Mass-spectrometric identification and relative quantification of N-linked cell surface glycoproteins."
      Wollscheid B., Bausch-Fluck D., Henderson C., O'Brien R., Bibel M., Schiess R., Aebersold R., Watts J.D.
      Nat. Biotechnol. 27:378-386(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-77; ASN-379 AND ASN-419.

    Entry informationi

    Entry nameiSEM4D_MOUSE
    AccessioniPrimary (citable) accession number: O09126
    Secondary accession number(s): Q6GTM9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: July 27, 2011
    Last modified: October 1, 2014
    This is version 124 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3