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Q8BH34

- SEM3D_MOUSE

UniProt

Q8BH34 - SEM3D_MOUSE

Protein

Semaphorin-3D

Gene

Sema3d

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 94 (01 Oct 2014)
      Sequence version 1 (01 Mar 2003)
      Previous versions | rss
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    Functioni

    Induces the collapse and paralysis of neuronal growth cones. Could potentially act as repulsive cues toward specific neuronal populations. Binds to neuropilin By similarity.By similarity

    GO - Molecular functioni

    1. receptor activity Source: InterPro

    GO - Biological processi

    1. cell differentiation Source: UniProtKB-KW
    2. nervous system development Source: UniProtKB-KW

    Keywords - Molecular functioni

    Developmental protein

    Keywords - Biological processi

    Differentiation, Neurogenesis

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Semaphorin-3D
    Gene namesi
    Name:Sema3d
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 5

    Organism-specific databases

    MGIiMGI:1860118. Sema3d.

    Subcellular locationi

    Secreted By similarity

    GO - Cellular componenti

    1. extracellular region Source: UniProtKB-SubCell
    2. membrane Source: InterPro

    Keywords - Cellular componenti

    Secreted

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 3737Sequence AnalysisAdd
    BLAST
    Chaini38 – 777740Semaphorin-3DPRO_0000042161Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi117 ↔ 128By similarity
    Glycosylationi139 – 1391N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi146 ↔ 155By similarity
    Disulfide bondi286 ↔ 398By similarity
    Disulfide bondi310 ↔ 358By similarity
    Disulfide bondi534 ↔ 552By similarity
    Glycosylationi607 – 6071N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi665 ↔ 731By similarity
    Glycosylationi724 – 7241N-linked (GlcNAc...)Sequence Analysis

    Keywords - PTMi

    Disulfide bond, Glycoprotein

    Proteomic databases

    PRIDEiQ8BH34.

    PTM databases

    PhosphoSiteiQ8BH34.

    Expressioni

    Gene expression databases

    ArrayExpressiQ8BH34.
    BgeeiQ8BH34.
    GenevestigatoriQ8BH34.

    Structurei

    3D structure databases

    ProteinModelPortaliQ8BH34.
    SMRiQ8BH34. Positions 39-683.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini44 – 531488SemaPROSITE-ProRule annotationAdd
    BLAST
    Domaini533 – 58553PSIAdd
    BLAST
    Domaini592 – 68089Ig-like C2-typeAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi739 – 77335Arg/Lys-rich (basic)Add
    BLAST

    Domaini

    Strong binding to neuropilin is mediated by the carboxy third of the protein.

    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

    Phylogenomic databases

    eggNOGiNOG247995.
    GeneTreeiENSGT00560000076660.
    HOGENOMiHOG000039964.
    HOVERGENiHBG055071.
    InParanoidiQ8BH34.
    KOiK06840.
    OMAiKACADCC.
    OrthoDBiEOG76QFGN.
    PhylomeDBiQ8BH34.
    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.
    IPR013106. Ig_V-set.
    IPR016201. Plexin-like_fold.
    IPR001627. Semap_dom.
    IPR027231. Semaphorin.
    IPR015943. WD40/YVTN_repeat-like_dom.
    [Graphical view]
    PANTHERiPTHR11036. PTHR11036. 1 hit.
    PfamiPF01403. Sema. 1 hit.
    PF07686. V-set. 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.

    Q8BH34-1 [UniParc]FASTAAdd to Basket

    « Hide

    MNVTKDENPR SRSQDLHLFH AWMMLIMTVL FLPVTETSKQ NIPRLKLTYK    50
    DLLLSNTCIP FLGSSEGLDF QTLLLDEERG ILLLGAKDHV FLLSLVDLNK 100
    NFKKIYWPAA KERVELCKLA GKDANAECAN FIRVLQPYNK THVYVCGTGA 150
    FHPLCGYIDL GANKEELIFK LDTHNLESGR LKCPFDPQQP FASVMTDEHL 200
    YSGTASDFLG KDTAFTRSLG LMQDHHSIRT DISEHHWLNG AKFIGTFPIP 250
    DTYNPDDDKI YFFFRESSQE GSTSDRSILS RVGRVCKNDV GGQRSLINKW 300
    TTFLKARLIC SIPGSDGADT HFDELQDIYL LPTRDERNPV VYGVFTTTSS 350
    IFKGSAVCVY SMADIRAVFN GPYAHKESAD HRWVQYDGRI PYPRPGTCPS 400
    KTYDPLIKST RDFPDDVISF IRRHPVMYKS VYPVAGAPTF KRINVDYRLT 450
    QIVVDHVVAE DGQYDVMFLG TDIGTVLKVV SISKEKWNME EVVLEELQVF 500
    KHPTAILNME LSLKQQQLYV GSWDGLVQLS LHRCDTYGKA CADCCLARDP 550
    YCAWDGNACS RYAPTSKRRA RRQDVKYGDP ITQCWDIEDS ISHETADEKV 600
    IFGIEFNSTF LECIPKSQQA SVEWYIQRSG DEHREELKPD ERIIKTDYGL 650
    LIRSLQKKDS GMYYCKAQEH TFIHTIVKLT LNVIENEQME NTQRAEYQEG 700
    QVKDLLAESR LRYKDYIQIL SSPNFSLDQY CEQMWYKEKR RQRNKGSPKW 750
    KHMQEMKKKR NRRHHRDLDE LQRSVAT 777
    Length:777
    Mass (Da):89,549
    Last modified:March 1, 2003 - v1
    Checksum:i5450D8D45D1BDABF
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK028900 mRNA. Translation: BAC26185.1.
    AK052671 mRNA. Translation: BAC35092.1.
    CCDSiCCDS39013.1.
    RefSeqiNP_083158.3. NM_028882.4.
    XP_006503588.1. XM_006503525.1.
    UniGeneiMm.89313.

    Genome annotation databases

    EnsembliENSMUST00000030868; ENSMUSP00000030868; ENSMUSG00000040254.
    GeneIDi108151.
    KEGGimmu:108151.
    UCSCiuc008wlx.2. mouse.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK028900 mRNA. Translation: BAC26185.1 .
    AK052671 mRNA. Translation: BAC35092.1 .
    CCDSi CCDS39013.1.
    RefSeqi NP_083158.3. NM_028882.4.
    XP_006503588.1. XM_006503525.1.
    UniGenei Mm.89313.

    3D structure databases

    ProteinModelPortali Q8BH34.
    SMRi Q8BH34. Positions 39-683.
    ModBasei Search...
    MobiDBi Search...

    PTM databases

    PhosphoSitei Q8BH34.

    Proteomic databases

    PRIDEi Q8BH34.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000030868 ; ENSMUSP00000030868 ; ENSMUSG00000040254 .
    GeneIDi 108151.
    KEGGi mmu:108151.
    UCSCi uc008wlx.2. mouse.

    Organism-specific databases

    CTDi 223117.
    MGIi MGI:1860118. Sema3d.

    Phylogenomic databases

    eggNOGi NOG247995.
    GeneTreei ENSGT00560000076660.
    HOGENOMi HOG000039964.
    HOVERGENi HBG055071.
    InParanoidi Q8BH34.
    KOi K06840.
    OMAi KACADCC.
    OrthoDBi EOG76QFGN.
    PhylomeDBi Q8BH34.
    TreeFami TF316102.

    Miscellaneous databases

    NextBioi 360170.
    PROi Q8BH34.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi Q8BH34.
    Bgeei Q8BH34.
    Genevestigatori Q8BH34.

    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.
    IPR013106. Ig_V-set.
    IPR016201. Plexin-like_fold.
    IPR001627. Semap_dom.
    IPR027231. Semaphorin.
    IPR015943. WD40/YVTN_repeat-like_dom.
    [Graphical view ]
    PANTHERi PTHR11036. PTHR11036. 1 hit.
    Pfami PF01403. Sema. 1 hit.
    PF07686. V-set. 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. "The transcriptional landscape of the mammalian genome."
      Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
      , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
      Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Strain: C57BL/6J.
      Tissue: Kidney and Skin.
    2. Lubec G., Sunyer B., Chen W.-Q.
      Submitted (JAN-2009) to UniProtKB
      Cited for: PROTEIN SEQUENCE OF 479-486, IDENTIFICATION BY MASS SPECTROMETRY.
      Strain: OF1.
      Tissue: Hippocampus.

    Entry informationi

    Entry nameiSEM3D_MOUSE
    AccessioniPrimary (citable) accession number: Q8BH34
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 27, 2005
    Last sequence update: March 1, 2003
    Last modified: October 1, 2014
    This is version 94 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Direct protein sequencing, 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