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Q13214

- SEM3B_HUMAN

UniProt

Q13214 - SEM3B_HUMAN

Protein

Semaphorin-3B

Gene

SEMA3B

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 128 (01 Oct 2014)
      Sequence version 1 (01 Nov 1996)
      Previous versions | rss
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    Functioni

    Inhibits axonal extension by providing local signals to specify territories inaccessible for growing axons.By similarity

    GO - Molecular functioni

    1. receptor activity Source: InterPro

    GO - Biological processi

    1. axon guidance Source: ProtInc
    2. cell-cell signaling Source: ProtInc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Semaphorin-3B
    Alternative name(s):
    Sema A(V)
    Semaphorin-V
    Short name:
    Sema V
    Gene namesi
    Name:SEMA3B
    Synonyms:SEMA5, SEMAA
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Unplaced

    Organism-specific databases

    HGNCiHGNC:10724. SEMA3B.

    Subcellular locationi

    Secreted By similarity. Endoplasmic reticulum
    Note: Accumulates in the endoplasmic reticulum.

    GO - Cellular componenti

    1. endoplasmic reticulum Source: ProtInc
    2. extracellular vesicular exosome Source: UniProt
    3. membrane Source: InterPro

    Keywords - Cellular componenti

    Endoplasmic reticulum, Secreted

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA35646.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 2424Sequence AnalysisAdd
    BLAST
    Chaini25 – 749725Semaphorin-3BPRO_0000032309Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi82 – 821N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi102 ↔ 113By similarity
    Glycosylationi124 – 1241N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi131 ↔ 140By similarity
    Disulfide bondi269 ↔ 380By similarity
    Disulfide bondi293 ↔ 340By similarity
    Glycosylationi427 – 4271N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi516 ↔ 534By similarity
    Disulfide bondi644 ↔ 710By similarity

    Keywords - PTMi

    Disulfide bond, Glycoprotein

    Proteomic databases

    MaxQBiQ13214.
    PaxDbiQ13214.
    PRIDEiQ13214.

    Expressioni

    Tissue specificityi

    Expressed abundantly but differentially in a variety of neural and nonneural tissues.

    Gene expression databases

    CleanExiHS_SEMA3B.
    GenevestigatoriQ13214.

    Interactioni

    Protein-protein interaction databases

    BioGridi113618. 1 interaction.
    IntActiQ13214. 1 interaction.
    STRINGi9606.ENSP00000389817.

    Structurei

    3D structure databases

    ProteinModelPortaliQ13214.
    SMRiQ13214. Positions 29-649.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini30 – 513484SemaPROSITE-ProRule annotationAdd
    BLAST
    Domaini573 – 65987Ig-like C2-typeAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi699 – 7024Poly-Gly
    Compositional biasi724 – 74421Arg-rich (basic)Add
    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

    Phylogenomic databases

    eggNOGiNOG293968.
    HOVERGENiHBG055071.
    InParanoidiQ13214.
    KOiK06840.
    OrthoDBiEOG7X6KZG.
    PhylomeDBiQ13214.

    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]

    Sequences (2)i

    Sequence statusi: Complete.

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

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q13214-1) [UniParc]FASTAAdd to Basket

    This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

    « Hide

    MGRAGAAAVI PGLALLWAVG LGSAAPSPPR LRLSFQELQA WHGLQTFSLE    50
    RTCCYQALLV DEERGRLFVG AENHVASLNL DNISKRAKKL AWPAPVEWRE 100
    ECNWAGKDIG TECMNFVKLL HAYNRTHLLA CGTGAFHPTC AFVEVGHRAE 150
    EPVLRLDPGR IEDGKGKSPY DPRHRAASVL VGEELYSGVA ADLMGRDFTI 200
    FRSLGQRPSL RTEPHDSRWL NEPKFVKVFW IPESENPDDD KIYFFFRETA 250
    VEAAPALGRL SVSRVGQICR NDVGGQRSLV NKWTTFLKAR LVCSVPGVEG 300
    DTHFDQLQDV FLLSSRDHRT PLLYAVFSTS SSIFQGSAVC VYSMNDVRRA 350
    FLGPFAHKEG PMHQWVSYQG RVPYPRPGMC PSKTFGTFSS TKDFPDDVIQ 400
    FARNHPLMYN SVLPTGGRPL FLQVGANYTF TQIAADRVAA ADGHYDVLFI 450
    GTDVGTVLKV ISVPKGSRPS AEGLLLEELH VFEDSAAVTS MQISSKRHQL 500
    YVASRSAVAQ IALHRCAAHG RVCTECCLAR DPYCAWDGVA CTRFQPSAKR 550
    RFRRQDVRNG DPSTLCSGDS SRPALLEHKV FGVEGSSAFL ECEPRSLQAR 600
    VEWTFQRAGV TAHTQVLAEE RTERTARGLL LRRLRRRDSG VYLCAAVEQG 650
    FTQPLRRLSL HVLSATQAER LARAEEAAPA APPGPKLWYR DFLQLVEPGG 700
    GGSANSLRMC RPQPALQSLP LESRRKGRNR RTHAPEPRAE RGPRSATHW 749
    Length:749
    Mass (Da):83,122
    Last modified:November 1, 1996 - v1
    Checksum:i1F3B8F63F59444F3
    GO
    Isoform 2 (identifier: Q13214-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         332-332: Missing.

    Note: No experimental confirmation available.

    Show »
    Length:748
    Mass (Da):83,035
    Checksum:i587C53CB65AB4656
    GO

    Sequence cautioni

    The sequence AAC02731.1 differs from that shown. Reason: Erroneous gene model prediction.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti29 – 368PRLRLSFQ → HAFGSPSKV in AAC02731. (PubMed:16641997)Curated
    Sequence conflicti308 – 3081Q → RPFPAE in BAB88870. 1 PublicationCurated

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti348 – 3481R → C in a non-small cell lung cancer cell line. 1 Publication
    VAR_014221
    Natural varianti397 – 3971D → H in a non-small cell lung cancer cell line. 1 Publication
    VAR_014222
    Natural varianti415 – 4151T → I in a non-small cell lung cancer cell line. 1 Publication
    Corresponds to variant rs2071203 [ dbSNP | Ensembl ].
    VAR_014223

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei332 – 3321Missing in isoform 2. 1 PublicationVSP_023032

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U28369 mRNA. Translation: AAD09138.1.
    AB083186 mRNA. Translation: BAB88870.1.
    U73167 Genomic DNA. Translation: AAC02731.1. Sequence problems.
    BC009113 mRNA. Translation: AAH09113.1.
    BC013975 mRNA. Translation: AAH13975.1.
    BC024220 mRNA. Translation: AAH24220.1.
    PIRiG01856.
    RefSeqiNP_001005914.1. NM_001005914.2. [Q13214-2]
    NP_001276989.1. NM_001290060.1. [Q13214-1]
    NP_001276990.1. NM_001290061.1.
    NP_001276991.1. NM_001290062.1.
    NP_001276992.1. NM_001290063.1.
    NP_004627.1. NM_004636.3. [Q13214-1]
    UniGeneiHs.82222.

    Genome annotation databases

    GeneIDi7869.
    KEGGihsa:7869.
    UCSCiuc003cyt.3. human. [Q13214-2]
    uc003cyu.3. human. [Q13214-1]

    Polymorphism databases

    DMDMi8134673.

    Keywords - Coding sequence diversityi

    Alternative splicing, Polymorphism

    Cross-referencesi

    Web resourcesi

    Atlas of Genetics and Cytogenetics in Oncology and Haematology

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U28369 mRNA. Translation: AAD09138.1 .
    AB083186 mRNA. Translation: BAB88870.1 .
    U73167 Genomic DNA. Translation: AAC02731.1 . Sequence problems.
    BC009113 mRNA. Translation: AAH09113.1 .
    BC013975 mRNA. Translation: AAH13975.1 .
    BC024220 mRNA. Translation: AAH24220.1 .
    PIRi G01856.
    RefSeqi NP_001005914.1. NM_001005914.2. [Q13214-2 ]
    NP_001276989.1. NM_001290060.1. [Q13214-1 ]
    NP_001276990.1. NM_001290061.1.
    NP_001276991.1. NM_001290062.1.
    NP_001276992.1. NM_001290063.1.
    NP_004627.1. NM_004636.3. [Q13214-1 ]
    UniGenei Hs.82222.

    3D structure databases

    ProteinModelPortali Q13214.
    SMRi Q13214. Positions 29-649.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 113618. 1 interaction.
    IntActi Q13214. 1 interaction.
    STRINGi 9606.ENSP00000389817.

    Polymorphism databases

    DMDMi 8134673.

    Proteomic databases

    MaxQBi Q13214.
    PaxDbi Q13214.
    PRIDEi Q13214.

    Protocols and materials databases

    DNASUi 7869.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 7869.
    KEGGi hsa:7869.
    UCSCi uc003cyt.3. human. [Q13214-2 ]
    uc003cyu.3. human. [Q13214-1 ]

    Organism-specific databases

    CTDi 7869.
    GeneCardsi GC03P050304.
    HGNCi HGNC:10724. SEMA3B.
    MIMi 601281. gene.
    neXtProti NX_Q13214.
    PharmGKBi PA35646.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG293968.
    HOVERGENi HBG055071.
    InParanoidi Q13214.
    KOi K06840.
    OrthoDBi EOG7X6KZG.
    PhylomeDBi Q13214.

    Miscellaneous databases

    ChiTaRSi SEMA3B. human.
    GeneWikii SEMA3B.
    GenomeRNAii 7869.
    NextBioi 30317.
    PROi Q13214.
    SOURCEi Search...

    Gene expression databases

    CleanExi HS_SEMA3B.
    Genevestigatori Q13214.

    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. "Human semaphorins A(V) and IV reside in the 3p21.3 small cell lung cancer deletion region and demonstrate distinct expression patterns."
      Sekido Y., Bader S., Latif F., Chen J.-Y., Duh F.-M., Wei M.-H., Albanesi J.P., Lee C.-C., Lerman M.I., Minna J.D.
      Proc. Natl. Acad. Sci. U.S.A. 93:4120-4125(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    2. "Semaphorin 3B (SEMA3B) cDNA."
      Koyama N.
      Submitted (APR-2002) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    3. "The DNA sequence, annotation and analysis of human chromosome 3."
      Muzny D.M., Scherer S.E., Kaul R., Wang J., Yu J., Sudbrak R., Buhay C.J., Chen R., Cree A., Ding Y., Dugan-Rocha S., Gill R., Gunaratne P., Harris R.A., Hawes A.C., Hernandez J., Hodgson A.V., Hume J.
      , Jackson A., Khan Z.M., Kovar-Smith C., Lewis L.R., Lozado R.J., Metzker M.L., Milosavljevic A., Miner G.R., Morgan M.B., Nazareth L.V., Scott G., Sodergren E., Song X.-Z., Steffen D., Wei S., Wheeler D.A., Wright M.W., Worley K.C., Yuan Y., Zhang Z., Adams C.Q., Ansari-Lari M.A., Ayele M., Brown M.J., Chen G., Chen Z., Clendenning J., Clerc-Blankenburg K.P., Chen R., Chen Z., Davis C., Delgado O., Dinh H.H., Dong W., Draper H., Ernst S., Fu G., Gonzalez-Garay M.L., Garcia D.K., Gillett W., Gu J., Hao B., Haugen E., Havlak P., He X., Hennig S., Hu S., Huang W., Jackson L.R., Jacob L.S., Kelly S.H., Kube M., Levy R., Li Z., Liu B., Liu J., Liu W., Lu J., Maheshwari M., Nguyen B.-V., Okwuonu G.O., Palmeiri A., Pasternak S., Perez L.M., Phelps K.A., Plopper F.J., Qiang B., Raymond C., Rodriguez R., Saenphimmachak C., Santibanez J., Shen H., Shen Y., Subramanian S., Tabor P.E., Verduzco D., Waldron L., Wang J., Wang J., Wang Q., Williams G.A., Wong G.K.-S., Yao Z., Zhang J., Zhang X., Zhao G., Zhou J., Zhou Y., Nelson D., Lehrach H., Reinhardt R., Naylor S.L., Yang H., Olson M., Weinstock G., Gibbs R.A.
      Nature 440:1194-1198(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    4. "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] (ISOFORM 2).
      Tissue: Brain and Muscle.
    5. "The 630-kb lung cancer homozygous deletion region on human chromosome 3p21.3: identification and evaluation of the resident candidate tumor suppressor genes."
      The international lung cancer chromosome 3p21.3 tumor suppressor gene consortium
      Lerman M.I., Minna J.D.
      Cancer Res. 60:6116-6133(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: DISCUSSION OF SEQUENCE, VARIANTS CYS-348; HIS-397 AND ILE-415.

    Entry informationi

    Entry nameiSEM3B_HUMAN
    AccessioniPrimary (citable) accession number: Q13214
    Secondary accession number(s): Q6GU46
    , Q8TB71, Q8TDV7, Q93018, Q96GX0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 128 of the entry and version 1 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 3
      Human chromosome 3: 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