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Q13275

- SEM3F_HUMAN

UniProt

Q13275 - SEM3F_HUMAN

Protein

Semaphorin-3F

Gene

SEMA3F

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 132 (01 Oct 2014)
      Sequence version 2 (01 Jan 1998)
      Previous versions | rss
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    Functioni

    May play a role in cell motility and cell adhesion.

    GO - Molecular functioni

    1. chemorepellent activity Source: MGI
    2. receptor activity Source: InterPro

    GO - Biological processi

    1. axon extension involved in axon guidance Source: BHF-UCL
    2. axon guidance Source: MGI
    3. negative regulation of axon extension involved in axon guidance Source: Ensembl
    4. nerve development Source: BHF-UCL
    5. neural crest cell migration Source: Ensembl
    6. semaphorin-plexin signaling pathway involved in neuron projection guidance Source: BHF-UCL
    7. sympathetic ganglion development Source: BHF-UCL
    8. sympathetic neuron projection extension Source: BHF-UCL
    9. sympathetic neuron projection guidance Source: BHF-UCL

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Semaphorin-3F
    Alternative name(s):
    Sema III/F
    Semaphorin IV
    Short name:
    Sema IV
    Gene namesi
    Name:SEMA3F
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 3

    Organism-specific databases

    HGNCiHGNC:10728. SEMA3F.

    Subcellular locationi

    Secreted By similarity

    GO - Cellular componenti

    1. extracellular space Source: ProtInc
    2. membrane Source: InterPro

    Keywords - Cellular componenti

    Secreted

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA35650.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 1818Sequence AnalysisAdd
    BLAST
    Chaini19 – 785767Semaphorin-3FPRO_0000032320Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi53 – 531N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi104 ↔ 115By similarity
    Glycosylationi126 – 1261N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi133 ↔ 142By similarity
    Disulfide bondi300 ↔ 412By similarity
    Disulfide bondi324 ↔ 372By similarity
    Disulfide bondi548 ↔ 566By similarity
    Disulfide bondi678 ↔ 746By similarity

    Keywords - PTMi

    Disulfide bond, Glycoprotein

    Proteomic databases

    MaxQBiQ13275.
    PaxDbiQ13275.
    PRIDEiQ13275.

    PTM databases

    PhosphoSiteiQ13275.

    Expressioni

    Tissue specificityi

    Expressed abundantly but differentially in a variety of neural and nonneural tissues. There is high expression in mammary gland, kidney, fetal brain, and lung and lower expression in heart and liver.

    Developmental stagei

    Detected as early as embryonic day 10.

    Gene expression databases

    ArrayExpressiQ13275.
    BgeeiQ13275.
    CleanExiHS_SEMA3F.
    GenevestigatoriQ13275.

    Organism-specific databases

    HPAiHPA035008.

    Interactioni

    Protein-protein interaction databases

    BioGridi112305. 3 interactions.
    IntActiQ13275. 2 interactions.
    MINTiMINT-1392156.
    STRINGi9606.ENSP00000002829.

    Structurei

    3D structure databases

    ProteinModelPortaliQ13275.
    SMRiQ13275. Positions 30-697.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini31 – 545515SemaPROSITE-ProRule annotationAdd
    BLAST
    Domaini605 – 69086Ig-like C2-typeAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi758 – 77922Arg/Lys-rich (basic)Add
    BLAST

    Sequence similaritiesi

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

    Keywords - Domaini

    Immunoglobulin domain, Signal

    Phylogenomic databases

    eggNOGiNOG320723.
    HOGENOMiHOG000039964.
    HOVERGENiHBG055071.
    InParanoidiQ13275.
    KOiK06840.
    OMAiACSRYTA.
    PhylomeDBiQ13275.
    TreeFamiTF352628.

    Family and domain databases

    Gene3Di2.130.10.10. 2 hits.
    2.60.40.10. 1 hit.
    InterProiIPR007110. Ig-like_dom.
    IPR013783. Ig-like_fold.
    IPR003599. Ig_sub.
    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.
    [Graphical view]
    SMARTiSM00409. IG. 1 hit.
    SM00423. PSI. 1 hit.
    SM00630. Sema. 1 hit.
    [Graphical view]
    SUPFAMiSSF101912. SSF101912. 2 hits.
    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: Q13275-1) [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

    MLVAGLLLWA SLLTGAWPSF PTQDHLPATP RVRLSFKELK ATGTAHFFNF    50
    LLNTTDYRIL LKDEDHDRMY VGSKDYVLSL DLHDINREPL IIHWAASPQR 100
    IEECVLSGKD VNGECGNFVR LIQPWNRTHL YVCGTGAYNP MCTYVNRGRR 150
    AQATPWTQTQ AVRGRGSRAT DGALRPMPTA PRQDYIFYLE PERLESGKGK 200
    CPYDPKLDTA SALINEELYA GVYIDFMGTD AAIFRTLGKQ TAMRTDQYNS 250
    RWLNDPSFIH AELIPDSAER NDDKLYFFFR ERSAEAPQSP AVYARIGRIC 300
    LNDDGGHCCL VNKWSTFLKA RLVCSVPGED GIETHFDELQ DVFVQQTQDV 350
    RNPVIYAVFT SSGSVFRGSA VCVYSMADIR MVFNGPFAHK EGPNYQWMPF 400
    SGKMPYPRPG TCPGGTFTPS MKSTKDYPDE VINFMRSHPL MYQAVYPLQR 450
    RPLVVRTGAP YRLTTIAVDQ VDAADGRYEV LFLGTDRGTV QKVIVLPKDD 500
    QELEELMLEE VEVFKDPAPV KTMTISSKRQ QLYVASAVGV THLSLHRCQA 550
    YGAACADCCL ARDPYCAWDG QACSRYTASS KRRSRRQDVR HGNPIRQCRG 600
    FNSNANKNAV ESVQYGVAGS AAFLECQPRS PQATVKWLFQ RDPGDRRREI 650
    RAEDRFLRTE QGLLLRALQL SDRGLYSCTA TENNFKHVVT RVQLHVLGRD 700
    AVHAALFPPL SMSAPPPPGA GPPTPPYQEL AQLLAQPEVG LIHQYCQGYW 750
    RHVPPSPREA PGAPRSPEPQ DQKKPRNRRH HPPDT 785
    Length:785
    Mass (Da):88,381
    Last modified:January 1, 1998 - v2
    Checksum:iFE3FC796EEC1608E
    GO
    Isoform 2 (identifier: Q13275-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         153-183: Missing.

    Show »
    Length:754
    Mass (Da):85,064
    Checksum:iAF4203BD1D2F2665
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti270 – 2701Missing in AAB18276. (PubMed:8786119)Curated
    Sequence conflicti473 – 4731A → S in AAB18276. (PubMed:8786119)Curated

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti474 – 4741A → G.
    Corresponds to variant rs1046955 [ dbSNP | Ensembl ].
    VAR_011820
    Natural varianti503 – 5031L → M.2 Publications
    Corresponds to variant rs1046956 [ dbSNP | Ensembl ].
    VAR_008855

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei153 – 18331Missing in isoform 2. 1 PublicationVSP_053417Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U33920 mRNA. Translation: AAC50568.1.
    U38276 mRNA. Translation: AAB18276.1.
    AC000063 Genomic DNA. Translation: AAB46344.1.
    AC104450 Genomic DNA. No translation available.
    BC042914 mRNA. Translation: AAH42914.1.
    U32171 mRNA. Translation: AAB06011.1.
    U32172 mRNA. Translation: AAB06012.1.
    CCDSiCCDS2811.1. [Q13275-1]
    PIRiG02173.
    RefSeqiNP_004177.3. NM_004186.3. [Q13275-1]
    XP_005265438.1. XM_005265381.2. [Q13275-1]
    XP_005265439.1. XM_005265382.2. [Q13275-2]
    UniGeneiHs.32981.

    Genome annotation databases

    EnsembliENST00000002829; ENSP00000002829; ENSG00000001617. [Q13275-1]
    ENST00000434342; ENSP00000409859; ENSG00000001617. [Q13275-2]
    GeneIDi6405.
    KEGGihsa:6405.
    UCSCiuc003cyj.3. human. [Q13275-1]

    Polymorphism databases

    DMDMi8134696.

    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
    U33920 mRNA. Translation: AAC50568.1 .
    U38276 mRNA. Translation: AAB18276.1 .
    AC000063 Genomic DNA. Translation: AAB46344.1 .
    AC104450 Genomic DNA. No translation available.
    BC042914 mRNA. Translation: AAH42914.1 .
    U32171 mRNA. Translation: AAB06011.1 .
    U32172 mRNA. Translation: AAB06012.1 .
    CCDSi CCDS2811.1. [Q13275-1 ]
    PIRi G02173.
    RefSeqi NP_004177.3. NM_004186.3. [Q13275-1 ]
    XP_005265438.1. XM_005265381.2. [Q13275-1 ]
    XP_005265439.1. XM_005265382.2. [Q13275-2 ]
    UniGenei Hs.32981.

    3D structure databases

    ProteinModelPortali Q13275.
    SMRi Q13275. Positions 30-697.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 112305. 3 interactions.
    IntActi Q13275. 2 interactions.
    MINTi MINT-1392156.
    STRINGi 9606.ENSP00000002829.

    PTM databases

    PhosphoSitei Q13275.

    Polymorphism databases

    DMDMi 8134696.

    Proteomic databases

    MaxQBi Q13275.
    PaxDbi Q13275.
    PRIDEi Q13275.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000002829 ; ENSP00000002829 ; ENSG00000001617 . [Q13275-1 ]
    ENST00000434342 ; ENSP00000409859 ; ENSG00000001617 . [Q13275-2 ]
    GeneIDi 6405.
    KEGGi hsa:6405.
    UCSCi uc003cyj.3. human. [Q13275-1 ]

    Organism-specific databases

    CTDi 6405.
    GeneCardsi GC03P050167.
    H-InvDB HIX0204323.
    HGNCi HGNC:10728. SEMA3F.
    HPAi HPA035008.
    MIMi 601124. gene.
    neXtProti NX_Q13275.
    PharmGKBi PA35650.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG320723.
    HOGENOMi HOG000039964.
    HOVERGENi HBG055071.
    InParanoidi Q13275.
    KOi K06840.
    OMAi ACSRYTA.
    PhylomeDBi Q13275.
    TreeFami TF352628.

    Miscellaneous databases

    GeneWikii SEMA3F.
    GenomeRNAii 6405.
    NextBioi 24886.
    PROi Q13275.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi Q13275.
    Bgeei Q13275.
    CleanExi HS_SEMA3F.
    Genevestigatori Q13275.

    Family and domain databases

    Gene3Di 2.130.10.10. 2 hits.
    2.60.40.10. 1 hit.
    InterProi IPR007110. Ig-like_dom.
    IPR013783. Ig-like_fold.
    IPR003599. Ig_sub.
    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.
    [Graphical view ]
    SMARTi SM00409. IG. 1 hit.
    SM00423. PSI. 1 hit.
    SM00630. Sema. 1 hit.
    [Graphical view ]
    SUPFAMi SSF101912. SSF101912. 2 hits.
    SSF103575. SSF103575. 1 hit.
    PROSITEi PS50835. IG_LIKE. 1 hit.
    PS51004. SEMA. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Distinct 3p21.3 deletions in lung cancer and identification of a new human semaphorin."
      Roche J., Boldog F., Robinson M., Robinson L., Varella-Garcia M., Swanton M., Waggoner B., Fishel R., Franklin W., Gemmill R., Drabkin H.
      Oncogene 12:1289-1297(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
      Tissue: Fetal brain.
    2. "Isolation of the human semaphorin III/F gene (SEMA3F) at chromosome 3p21, a region deleted in lung cancer."
      Xiang R.-H., Hensel C.H., Garcia D.K., Carlson H.C., Kok K., Daly M.C., Kerbacher K., van den Berg A., Veldhuis P., Buys C.H.C.M., Naylor S.L.
      Genomics 32:39-48(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), VARIANT MET-503.
      Tissue: Fetal brain.
    3. "The sequence of H. sapiens cosmid clone LUCA19."
      Nelson J., Biewald T.
      Submitted (NOV-1996) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    4. "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].
    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] (ISOFORM 1), VARIANT MET-503.
      Tissue: Brain.
    6. "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] OF 394-436 (ISOFORM 1/2).
      Tissue: Placenta.

    Entry informationi

    Entry nameiSEM3F_HUMAN
    AccessioniPrimary (citable) accession number: Q13275
    Secondary accession number(s): C9JQ85
    , Q13274, Q13372, Q15704, Q6GTR4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: January 1, 1998
    Last modified: October 1, 2014
    This is version 132 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 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