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O95754

- SEM4F_HUMAN

UniProt

O95754 - SEM4F_HUMAN

Protein

Semaphorin-4F

Gene

SEMA4F

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 140 (01 Oct 2014)
      Sequence version 2 (30 May 2000)
      Previous versions | rss
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    Functioni

    Has growth cone collapse activity against retinal ganglion-cell 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
    3. negative regulation of axon extension Source: Ensembl
    4. nervous system development Source: ProtInc
    5. retinal ganglion cell axon guidance Source: Ensembl

    Keywords - Molecular functioni

    Developmental protein

    Keywords - Biological processi

    Differentiation, Neurogenesis

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Semaphorin-4F
    Alternative name(s):
    Semaphorin-M
    Short name:
    Sema M
    Semaphorin-W
    Short name:
    Sema W
    Gene namesi
    Name:SEMA4F
    Synonyms:SEMAM, SEMAW
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 2

    Organism-specific databases

    HGNCiHGNC:10734. SEMA4F.

    Subcellular locationi

    GO - Cellular componenti

    1. endoplasmic reticulum Source: LIFEdb
    2. integral component of plasma membrane Source: ProtInc
    3. membrane Source: ProtInc
    4. plasma membrane Source: ProtInc
    5. postsynaptic membrane Source: Ensembl

    Keywords - Cellular componenti

    Membrane

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA35656.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 3434Sequence AnalysisAdd
    BLAST
    Chaini35 – 770736Semaphorin-4FPRO_0000032330Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi64 – 641N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi112 ↔ 122PROSITE-ProRule annotation
    Glycosylationi133 – 1331N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi140 ↔ 149PROSITE-ProRule annotation
    Disulfide bondi273 ↔ 384PROSITE-ProRule annotation
    Disulfide bondi297 ↔ 343PROSITE-ProRule annotation
    Glycosylationi509 – 5091N-linked (GlcNAc...)Sequence Analysis
    Disulfide bondi513 ↔ 530PROSITE-ProRule annotation
    Disulfide bondi522 ↔ 539PROSITE-ProRule annotation
    Disulfide bondi587 ↔ 628PROSITE-ProRule annotation

    Keywords - PTMi

    Disulfide bond, Glycoprotein

    Proteomic databases

    PaxDbiO95754.
    PRIDEiO95754.

    PTM databases

    PhosphoSiteiO95754.

    Expressioni

    Gene expression databases

    ArrayExpressiO95754.
    BgeeiO95754.
    CleanExiHS_SEMA4F.
    GenevestigatoriO95754.

    Interactioni

    Protein-protein interaction databases

    MINTiMINT-3003200.
    STRINGi9606.ENSP00000350547.

    Structurei

    3D structure databases

    ProteinModelPortaliO95754.
    SMRiO95754. Positions 40-632.
    ModBaseiSearch...
    MobiDBiSearch...

    Topological domain

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Topological domaini35 – 659625ExtracellularSequence AnalysisAdd
    BLAST
    Topological domaini681 – 77090CytoplasmicSequence AnalysisAdd
    BLAST

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei660 – 68021HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini42 – 510469SemaPROSITE-ProRule annotationAdd
    BLAST
    Domaini512 – 56352PSIAdd
    BLAST
    Domaini580 – 63556Ig-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

    eggNOGiNOG258001.
    HOGENOMiHOG000116087.
    HOVERGENiHBG093234.
    InParanoidiO95754.
    KOiK06521.
    OMAiCNRGLPV.
    OrthoDBiEOG7KM5S4.
    PhylomeDBiO95754.
    TreeFamiTF352903.

    Family and domain databases

    Gene3Di2.130.10.10. 1 hit.
    InterProiIPR016201. Plexin-like_fold.
    IPR002165. Plexin_repeat.
    IPR015512. Seamphorin_4F.
    IPR001627. Semap_dom.
    IPR027231. Semaphorin.
    IPR015943. WD40/YVTN_repeat-like_dom.
    [Graphical view]
    PANTHERiPTHR11036. PTHR11036. 1 hit.
    PTHR11036:SF72. PTHR11036:SF72. 1 hit.
    PfamiPF01437. PSI. 1 hit.
    PF01403. Sema. 1 hit.
    [Graphical view]
    SMARTiSM00423. PSI. 1 hit.
    SM00630. Sema. 1 hit.
    [Graphical view]
    SUPFAMiSSF101912. SSF101912. 1 hit.
    SSF103575. SSF103575. 1 hit.
    PROSITEiPS51004. 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 Long (identifier: O95754-1) [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

    MPASAARPRP GPGQPTASPF PLLLLAVLSG PVSGRVPRSV PRTSLPISEA    50
    DSCLTRFAVP HTYNYSVLLV DPASHTLYVG ARDTIFALSL PFSGERPRRI 100
    DWMVPEAHRQ NCRKKGKKED ECHNFVQILA IANASHLLTC GTFAFDPKCG 150
    VIDVSRFQQV ERLESGRGKC PFEPAQRSAA VMAGGVLYAA TVKNYLGTEP 200
    IITRAVGRAE DWIRTDTLPS WLNAPAFVAA VALSPAEWGD EDGDDEIYFF 250
    FTETSRAFDS YERIKVPRVA RVCAGDLGGR KTLQQRWTTF LKADLLCPGP 300
    EHGRASSVLQ DVAVLRPELG AGTPIFYGIF SSQWEGATIS AVCAFRPQDI 350
    RTVLNGPFRE LKHDCNRGLP VVDNDVPQPR PGECITNNMK LRHFGSSLSL 400
    PDRVLTFIRD HPLMDRPVFP ADGHPLLVTT DTAYLRVVAH RVTSLSGKEY 450
    DVLYLGTEDG HLHRAVRIGA QLSVLEDLAL FPEPQPVENM KLYHSWLLVG 500
    SRTEVTQVNT TNCGRLQSCS ECILAQDPVC AWSFRLDECV AHAGEHRGLV 550
    QDIESADVSS LCPKEPGERP VVFEVPVATA AHVVLPCSPS SAWASCVWHQ 600
    PSGVTALTPR RDGLEVVVTP GAMGAYACEC QEGGAAHVVA AYSLVWGSQR 650
    DAPSRAHTVG AGLAGFFLGI LAASLTLILI GRRQQRRRQR ELLARDKVGL 700
    DLGAPPSGTT SYSQDPPSPS PEDERLPLAL AKRGSGFGGF SPPFLLDPCP 750
    SPAHIRLTGA PLATCDETSI 770
    Length:770
    Mass (Da):83,511
    Last modified:May 30, 2000 - v2
    Checksum:iCFBB74B41DF0E9C8
    GO
    Isoform Short (identifier: O95754-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         120-274: Missing.

    Show »
    Length:615
    Mass (Da):66,477
    Checksum:i43FBD465AFC6AEAD
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti533 – 5331S → N in BAA75631. (PubMed:10051670)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei120 – 274155Missing in isoform Short. 2 PublicationsVSP_006043Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB022317 mRNA. Translation: BAA75631.1.
    AL136552 mRNA. Translation: CAB66487.1.
    AK075384 mRNA. Translation: BAC11584.1.
    AC006544 Genomic DNA. No translation available.
    BC018361 mRNA. Translation: AAH18361.1.
    BC038411 mRNA. Translation: AAH38411.1.
    AF053369 mRNA. Translation: AAF80660.1.
    CCDSiCCDS1955.1. [O95754-1]
    CCDS62942.1. [O95754-2]
    RefSeqiNP_001258590.1. NM_001271661.1. [O95754-2]
    NP_001258591.1. NM_001271662.1.
    NP_004254.2. NM_004263.4. [O95754-1]
    UniGeneiHs.25887.

    Genome annotation databases

    EnsembliENST00000339773; ENSP00000342675; ENSG00000135622. [O95754-2]
    ENST00000357877; ENSP00000350547; ENSG00000135622. [O95754-1]
    GeneIDi10505.
    KEGGihsa:10505.
    UCSCiuc002sna.2. human. [O95754-1]
    uc002snb.2. human. [O95754-2]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB022317 mRNA. Translation: BAA75631.1 .
    AL136552 mRNA. Translation: CAB66487.1 .
    AK075384 mRNA. Translation: BAC11584.1 .
    AC006544 Genomic DNA. No translation available.
    BC018361 mRNA. Translation: AAH18361.1 .
    BC038411 mRNA. Translation: AAH38411.1 .
    AF053369 mRNA. Translation: AAF80660.1 .
    CCDSi CCDS1955.1. [O95754-1 ]
    CCDS62942.1. [O95754-2 ]
    RefSeqi NP_001258590.1. NM_001271661.1. [O95754-2 ]
    NP_001258591.1. NM_001271662.1.
    NP_004254.2. NM_004263.4. [O95754-1 ]
    UniGenei Hs.25887.

    3D structure databases

    ProteinModelPortali O95754.
    SMRi O95754. Positions 40-632.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    MINTi MINT-3003200.
    STRINGi 9606.ENSP00000350547.

    PTM databases

    PhosphoSitei O95754.

    Proteomic databases

    PaxDbi O95754.
    PRIDEi O95754.

    Protocols and materials databases

    DNASUi 10505.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000339773 ; ENSP00000342675 ; ENSG00000135622 . [O95754-2 ]
    ENST00000357877 ; ENSP00000350547 ; ENSG00000135622 . [O95754-1 ]
    GeneIDi 10505.
    KEGGi hsa:10505.
    UCSCi uc002sna.2. human. [O95754-1 ]
    uc002snb.2. human. [O95754-2 ]

    Organism-specific databases

    CTDi 10505.
    GeneCardsi GC02P074793.
    HGNCi HGNC:10734. SEMA4F.
    MIMi 603706. gene.
    neXtProti NX_O95754.
    PharmGKBi PA35656.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG258001.
    HOGENOMi HOG000116087.
    HOVERGENi HBG093234.
    InParanoidi O95754.
    KOi K06521.
    OMAi CNRGLPV.
    OrthoDBi EOG7KM5S4.
    PhylomeDBi O95754.
    TreeFami TF352903.

    Miscellaneous databases

    GeneWikii SEMA4F.
    GenomeRNAii 10505.
    NextBioi 39852.
    PROi O95754.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi O95754.
    Bgeei O95754.
    CleanExi HS_SEMA4F.
    Genevestigatori O95754.

    Family and domain databases

    Gene3Di 2.130.10.10. 1 hit.
    InterProi IPR016201. Plexin-like_fold.
    IPR002165. Plexin_repeat.
    IPR015512. Seamphorin_4F.
    IPR001627. Semap_dom.
    IPR027231. Semaphorin.
    IPR015943. WD40/YVTN_repeat-like_dom.
    [Graphical view ]
    PANTHERi PTHR11036. PTHR11036. 1 hit.
    PTHR11036:SF72. PTHR11036:SF72. 1 hit.
    Pfami PF01437. PSI. 1 hit.
    PF01403. Sema. 1 hit.
    [Graphical view ]
    SMARTi SM00423. PSI. 1 hit.
    SM00630. Sema. 1 hit.
    [Graphical view ]
    SUPFAMi SSF101912. SSF101912. 1 hit.
    SSF103575. SSF103575. 1 hit.
    PROSITEi PS51004. SEMA. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Cloning, expression, and genetic mapping of Sema W, a member of the semaphorin family."
      Encinas J.A., Kikuchi K., Chedotal A., de Castro F., Goodman C.S., Kimura T.
      Proc. Natl. Acad. Sci. U.S.A. 96:2491-2496(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM SHORT).
      Tissue: Brain.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM LONG).
      Tissue: Amygdala.
    3. "Signal sequence and keyword trap in silico for selection of full-length human cDNAs encoding secretion or membrane proteins from oligo-capped cDNA libraries."
      Otsuki T., Ota T., Nishikawa T., Hayashi K., Suzuki Y., Yamamoto J., Wakamatsu A., Kimura K., Sakamoto K., Hatano N., Kawai Y., Ishii S., Saito K., Kojima S., Sugiyama T., Ono T., Okano K., Yoshikawa Y.
      , Aotsuka S., Sasaki N., Hattori A., Okumura K., Nagai K., Sugano S., Isogai T.
      DNA Res. 12:117-126(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM LONG).
    4. "Generation and annotation of the DNA sequences of human chromosomes 2 and 4."
      Hillier L.W., Graves T.A., Fulton R.S., Fulton L.A., Pepin K.H., Minx P., Wagner-McPherson C., Layman D., Wylie K., Sekhon M., Becker M.C., Fewell G.A., Delehaunty K.D., Miner T.L., Nash W.E., Kremitzki C., Oddy L., Du H.
      , Sun H., Bradshaw-Cordum H., Ali J., Carter J., Cordes M., Harris A., Isak A., van Brunt A., Nguyen C., Du F., Courtney L., Kalicki J., Ozersky P., Abbott S., Armstrong J., Belter E.A., Caruso L., Cedroni M., Cotton M., Davidson T., Desai A., Elliott G., Erb T., Fronick C., Gaige T., Haakenson W., Haglund K., Holmes A., Harkins R., Kim K., Kruchowski S.S., Strong C.M., Grewal N., Goyea E., Hou S., Levy A., Martinka S., Mead K., McLellan M.D., Meyer R., Randall-Maher J., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Shah N., Swearengen-Shahid S., Snider J., Strong J.T., Thompson J., Yoakum M., Leonard S., Pearman C., Trani L., Radionenko M., Waligorski J.E., Wang C., Rock S.M., Tin-Wollam A.-M., Maupin R., Latreille P., Wendl M.C., Yang S.-P., Pohl C., Wallis J.W., Spieth J., Bieri T.A., Berkowicz N., Nelson J.O., Osborne J., Ding L., Meyer R., Sabo A., Shotland Y., Sinha P., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Jones T.A., She X., Ciccarelli F.D., Izaurralde E., Taylor J., Schmutz J., Myers R.M., Cox D.R., Huang X., McPherson J.D., Mardis E.R., Clifton S.W., Warren W.C., Chinwalla A.T., Eddy S.R., Marra M.A., Ovcharenko I., Furey T.S., Miller W., Eichler E.E., Bork P., Suyama M., Torrents D., Waterston R.H., Wilson R.K.
      Nature 434:724-731(2005) [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] (ISOFORMS LONG AND SHORT).
      Tissue: Brain.
    6. "Large-scale comparative sequence analysis of human and mouse genomic DNA in the mnd2 region of mouse chromosome 6 reveals coding regions of three new genes."
      Jang W., Spilson S.V., Hua A., Roe B., Meisler M.H.
      Submitted (MAR-1998) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 347-770.

    Entry informationi

    Entry nameiSEM4F_HUMAN
    AccessioniPrimary (citable) accession number: O95754
    Secondary accession number(s): Q542Y7, Q9NS35
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: May 30, 2000
    Last modified: October 1, 2014
    This is version 140 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 2
      Human chromosome 2: entries, gene names and cross-references to MIM
    2. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3