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O95025

- SEM3D_HUMAN

UniProt

O95025 - SEM3D_HUMAN

Protein

Semaphorin-3D

Gene

SEMA3D

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 124 (01 Oct 2014)
      Sequence version 2 (30 May 2000)
      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
    ORF Names:UNQ760/PRO1491
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 7

    Organism-specific databases

    HGNCiHGNC:10726. SEMA3D.

    Subcellular locationi

    Secreted By similarity

    GO - Cellular componenti

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

    Keywords - Cellular componenti

    Secreted

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA35648.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 3636Sequence AnalysisAdd
    BLAST
    Chaini37 – 777741Semaphorin-3DPRO_0000032314Add
    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

    PaxDbiO95025.
    PRIDEiO95025.

    PTM databases

    PhosphoSiteiO95025.

    Expressioni

    Gene expression databases

    ArrayExpressiO95025.
    BgeeiO95025.
    CleanExiHS_SEMA3D.
    GenevestigatoriO95025.

    Organism-specific databases

    HPAiHPA037522.

    Interactioni

    Protein-protein interaction databases

    STRINGi9606.ENSP00000284136.

    Structurei

    3D structure databases

    ProteinModelPortaliO95025.
    SMRiO95025. 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.
    HOGENOMiHOG000039964.
    HOVERGENiHBG055071.
    InParanoidiO95025.
    KOiK06840.
    OMAiKACADCC.
    OrthoDBiEOG76QFGN.
    PhylomeDBiO95025.
    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.

    O95025-1 [UniParc]FASTAAdd to Basket

    « Hide

    MNANKDERLK ARSQDFHLFP ALMMLSMTML FLPVTGTLKQ NIPRLKLTYK    50
    DLLLSNSCIP FLGSSEGLDF QTLLLDEERG RLLLGAKDHI FLLSLVDLNK 100
    NFKKIYWPAA KERVELCKLA GKDANTECAN FIRVLQPYNK THIYVCGTGA 150
    FHPICGYIDL GVYKEDIIFK LDTHNLESGR LKCPFDPQQP FASVMTDEYL 200
    YSGTASDFLG KDTAFTRSLG PTHDHHYIRT DISEHYWLNG AKFIGTFFIP 250
    DTYNPDDDKI YFFFRESSQE GSTSDKTILS RVGRVCKNDV GGQRSLINKW 300
    TTFLKARLIC SIPGSDGADT YFDELQDIYL LPTRDERNPV VYGVFTTTSS 350
    IFKGSAVCVY SMADIRAVFN GPYAHKESAD HRWVQYDGRI PYPRPGTCPS 400
    KTYDPLIKST RDFPDDVISF IKRHSVMYKS VYPVAGGPTF KRINVDYRLT 450
    QIVVDHVIAE DGQYDVMFLG TDIGTVLKVV SISKEKWNME EVVLEELQIF 500
    KHSSIILNME LSLKQQQLYI GSRDGLVQLS LHRCDTYGKA CADCCLARDP 550
    YCAWDGNACS RYAPTSKRRA RRQDVKYGDP ITQCWDIEDS ISHETADEKV 600
    IFGIEFNSTF LECIPKSQQA TIKWYIQRSG DEHREELKPD ERIIKTEYGL 650
    LIRSLQKKDS GMYYCKAQEH TFIHTIVKLT LNVIENEQME NTQRAEHEEG 700
    KVKDLLAESR LRYKDYIQIL SSPNFSLDQY CEQMWHREKR RQRNKGGPKW 750
    KHMQEMKKKR NRRHHRDLDE LPRAVAT 777
    Length:777
    Mass (Da):89,651
    Last modified:May 30, 2000 - v2
    Checksum:i3F7B0D7AF50F53BD
    GO

    Sequence cautioni

    The sequence AAH29590.1 differs from that shown. Reason: Erroneous initiation.

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti701 – 7011K → Q.1 Publication
    Corresponds to variant rs7800072 [ dbSNP | Ensembl ].
    VAR_021513

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY358937 mRNA. Translation: AAQ89296.1.
    AC004957 Genomic DNA. No translation available.
    BC029590 mRNA. Translation: AAH29590.1. Different initiation.
    CCDSiCCDS34676.1.
    RefSeqiNP_689967.2. NM_152754.2.
    UniGeneiHs.201340.

    Genome annotation databases

    EnsembliENST00000284136; ENSP00000284136; ENSG00000153993.
    GeneIDi223117.
    KEGGihsa:223117.
    UCSCiuc003uib.3. human.

    Keywords - Coding sequence diversityi

    Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY358937 mRNA. Translation: AAQ89296.1 .
    AC004957 Genomic DNA. No translation available.
    BC029590 mRNA. Translation: AAH29590.1 . Different initiation.
    CCDSi CCDS34676.1.
    RefSeqi NP_689967.2. NM_152754.2.
    UniGenei Hs.201340.

    3D structure databases

    ProteinModelPortali O95025.
    SMRi O95025. Positions 39-683.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 9606.ENSP00000284136.

    PTM databases

    PhosphoSitei O95025.

    Proteomic databases

    PaxDbi O95025.
    PRIDEi O95025.

    Protocols and materials databases

    DNASUi 223117.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000284136 ; ENSP00000284136 ; ENSG00000153993 .
    GeneIDi 223117.
    KEGGi hsa:223117.
    UCSCi uc003uib.3. human.

    Organism-specific databases

    CTDi 223117.
    GeneCardsi GC07M084624.
    H-InvDB HIX0006812.
    HGNCi HGNC:10726. SEMA3D.
    HPAi HPA037522.
    MIMi 609907. gene.
    neXtProti NX_O95025.
    PharmGKBi PA35648.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG247995.
    HOGENOMi HOG000039964.
    HOVERGENi HBG055071.
    InParanoidi O95025.
    KOi K06840.
    OMAi KACADCC.
    OrthoDBi EOG76QFGN.
    PhylomeDBi O95025.
    TreeFami TF316102.

    Miscellaneous databases

    ChiTaRSi SEMA3D. human.
    GenomeRNAii 223117.
    NextBioi 91714.
    PROi O95025.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi O95025.
    Bgeei O95025.
    CleanExi HS_SEMA3D.
    Genevestigatori O95025.

    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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT GLN-701.
    2. "The DNA sequence of human chromosome 7."
      Hillier L.W., Fulton R.S., Fulton L.A., Graves T.A., Pepin K.H., Wagner-McPherson C., Layman D., Maas J., Jaeger S., Walker R., Wylie K., Sekhon M., Becker M.C., O'Laughlin M.D., Schaller M.E., Fewell G.A., Delehaunty K.D., Miner T.L.
      , Nash W.E., Cordes M., Du H., Sun H., Edwards J., Bradshaw-Cordum H., Ali J., Andrews S., Isak A., Vanbrunt A., Nguyen C., Du F., Lamar B., Courtney L., Kalicki J., Ozersky P., Bielicki L., Scott K., Holmes A., Harkins R., Harris A., Strong C.M., Hou S., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Leonard S., Rohlfing T., Rock S.M., Tin-Wollam A.-M., Abbott A., Minx P., Maupin R., Strowmatt C., Latreille P., Miller N., Johnson D., Murray J., Woessner J.P., Wendl M.C., Yang S.-P., Schultz B.R., Wallis J.W., Spieth J., Bieri T.A., Nelson J.O., Berkowicz N., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Bedell J.A., Mardis E.R., Clifton S.W., Chissoe S.L., Marra M.A., Raymond C., Haugen E., Gillett W., Zhou Y., James R., Phelps K., Iadanoto S., Bubb K., Simms E., Levy R., Clendenning J., Kaul R., Kent W.J., Furey T.S., Baertsch R.A., Brent M.R., Keibler E., Flicek P., Bork P., Suyama M., Bailey J.A., Portnoy M.E., Torrents D., Chinwalla A.T., Gish W.R., Eddy S.R., McPherson J.D., Olson M.V., Eichler E.E., Green E.D., Waterston R.H., Wilson R.K.
      Nature 424:157-164(2003) [PubMed] [Europe PMC] [Abstract]
      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] OF 327-777.
      Tissue: Testis.

    Entry informationi

    Entry nameiSEM3D_HUMAN
    AccessioniPrimary (citable) accession number: O95025
    Secondary accession number(s): A6NK46, Q6UW77, Q8NCQ1
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: May 30, 2000
    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
    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 chromosome 7
      Human chromosome 7: entries, gene names and cross-references to MIM
    2. Human entries with polymorphisms or disease mutations
      List of human entries with polymorphisms or disease mutations
    3. Human polymorphisms and disease mutations
      Index of human polymorphisms and disease mutations
    4. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    5. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3