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O08562

- SCN9A_RAT

UniProt

O08562 - SCN9A_RAT

Protein

Sodium channel protein type 9 subunit alpha

Gene

Scn9a

Organism
Rattus norvegicus (Rat)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 100 (01 Oct 2014)
      Sequence version 1 (01 Jul 1997)
      Previous versions | rss
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    Functioni

    Mediates the voltage-dependent sodium ion permeability of excitable membranes. Assuming opened or closed conformations in response to the voltage difference across the membrane, the protein forms a sodium-selective channel through which Na+ ions may pass in accordance with their electrochemical gradient. It is a tetrodotoxin-sensitive Na+ channel isoform. Plays a role in pain mechanisms, especially in the development of inflammatory pain By similarity.By similarity

    GO - Molecular functioni

    1. sodium ion binding Source: RGD
    2. voltage-gated sodium channel activity Source: RGD

    GO - Biological processi

    1. behavioral response to pain Source: Ensembl
    2. inflammatory response Source: Ensembl
    3. membrane depolarization during action potential Source: RefGenome
    4. neuronal action potential Source: RGD
    5. post-embryonic development Source: Ensembl
    6. response to toxic substance Source: Ensembl
    7. rhythmic excitation Source: RGD
    8. sodium ion transmembrane transport Source: GOC

    Keywords - Molecular functioni

    Ion channel, Sodium channel, Voltage-gated channel

    Keywords - Biological processi

    Ion transport, Sodium transport, Transport

    Keywords - Ligandi

    Sodium

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Sodium channel protein type 9 subunit alpha
    Alternative name(s):
    Peripheral sodium channel 1
    Short name:
    PN1
    Sodium channel protein type IX subunit alpha
    Voltage-gated sodium channel subunit alpha Nav1.7
    Gene namesi
    Name:Scn9a
    OrganismiRattus norvegicus (Rat)
    Taxonomic identifieri10116 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
    ProteomesiUP000002494: Chromosome 3

    Organism-specific databases

    RGDi69368. Scn9a.

    Subcellular locationi

    Membrane By similarity; Multi-pass membrane protein By similarity
    Note: In neurite terminals.1 Publication

    GO - Cellular componenti

    1. voltage-gated sodium channel complex Source: RGD

    Keywords - Cellular componenti

    Membrane

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 19841984Sodium channel protein type 9 subunit alphaPRO_0000048505Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi209 – 2091N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi283 – 2831N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi1350 – 13501N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi1364 – 13641N-linked (GlcNAc...)Sequence Analysis
    Glycosylationi1373 – 13731N-linked (GlcNAc...)Sequence Analysis
    Modified residuei1488 – 14881Phosphoserine; by PKCBy similarity

    Post-translational modificationi

    Ubiquitinated by NEDD4L; which may promote its endocytosis. Does not seem to be ubiquitinated by NEDD4 By similarity.By similarity
    Phosphorylation at Ser-1488 by PKC in a highly conserved cytoplasmic loop slows inactivation of the sodium channel and reduces peak sodium currents.By similarity

    Keywords - PTMi

    Glycoprotein, Phosphoprotein, Ubl conjugation

    Proteomic databases

    PaxDbiO08562.
    PRIDEiO08562.

    PTM databases

    PhosphoSiteiO08562.

    Expressioni

    Tissue specificityi

    Expressed at high level in the dorsal root ganglion and at much lower levels in the brain, sciatic nerve, nodose ganglia, heart, thyroid and adrenal glands and Schwann cells, but not in the cardiac and skeletal muscles, brain and liver.2 Publications

    Gene expression databases

    GenevestigatoriO08562.

    Interactioni

    Subunit structurei

    The sodium channel consists of a large polypeptide and 2-3 smaller ones. This sequence represents a large polypeptide. Interacts with NEDD4 and NEDD4L By similarity.By similarity

    Structurei

    3D structure databases

    ProteinModelPortaliO08562.
    ModBaseiSearch...
    MobiDBiSearch...

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei122 – 14524Helical; Name=S1 of repeat ISequence AnalysisAdd
    BLAST
    Transmembranei154 – 17320Helical; Name=S2 of repeat ISequence AnalysisAdd
    BLAST
    Transmembranei187 – 20519Helical; Name=S3 of repeat ISequence AnalysisAdd
    BLAST
    Transmembranei212 – 23120Helical; Voltage-sensor; Name=S4 of repeat ISequence AnalysisAdd
    BLAST
    Transmembranei248 – 27124Helical; Name=S5 of repeat ISequence AnalysisAdd
    BLAST
    Transmembranei379 – 40426Helical; Name=S6 of repeat ISequence AnalysisAdd
    BLAST
    Transmembranei738 – 76225Helical; Name=S1 of repeat IISequence AnalysisAdd
    BLAST
    Transmembranei774 – 79724Helical; Name=S2 of repeat IISequence AnalysisAdd
    BLAST
    Transmembranei806 – 82520Helical; Name=S3 of repeat IISequence AnalysisAdd
    BLAST
    Transmembranei832 – 85120Helical; Voltage-sensor; Name=S4 of repeat IISequence AnalysisAdd
    BLAST
    Transmembranei868 – 88821Helical; Name=S5 of repeat IISequence AnalysisAdd
    BLAST
    Transmembranei942 – 96726Helical; Name=S6 of repeat IISequence AnalysisAdd
    BLAST
    Transmembranei1186 – 120924Helical; Name=S1 of repeat IIISequence AnalysisAdd
    BLAST
    Transmembranei1223 – 124826Helical; Name=S2 of repeat IIISequence AnalysisAdd
    BLAST
    Transmembranei1255 – 127622Helical; Name=S3 of repeat IIISequence AnalysisAdd
    BLAST
    Transmembranei1281 – 130222Helical; Voltage-sensor; Name=S4 of repeat IIISequence AnalysisAdd
    BLAST
    Transmembranei1322 – 134928Helical; Name=S5 of repeat IIISequence AnalysisAdd
    BLAST
    Transmembranei1429 – 145527Helical; Name=S6 of repeat IIISequence AnalysisAdd
    BLAST
    Transmembranei1509 – 153224Helical; Name=S1 of repeat IVSequence AnalysisAdd
    BLAST
    Transmembranei1544 – 156724Helical; Name=S2 of repeat IVSequence AnalysisAdd
    BLAST
    Transmembranei1574 – 159724Helical; Name=S3 of repeat IVSequence AnalysisAdd
    BLAST
    Transmembranei1608 – 162922Helical; Voltage-sensor; Name=S4 of repeat IVSequence AnalysisAdd
    BLAST
    Transmembranei1645 – 166723Helical; Name=S5 of repeat IVSequence AnalysisAdd
    BLAST
    Transmembranei1734 – 175825Helical; Name=S6 of repeat IVSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Repeati121 – 405285IAdd
    BLAST
    Repeati737 – 968232IIAdd
    BLAST
    Repeati1185 – 1456272IIIAdd
    BLAST
    Repeati1508 – 1759252IVAdd
    BLAST
    Domaini1887 – 191630IQAdd
    BLAST

    Domaini

    The sequence contains 4 internal repeats, each with 5 hydrophobic segments (S1,S2,S3,S5,S6) and one positively charged segment (S4). Segments S4 are probably the voltage-sensors and are characterized by a series of positively charged amino acids at every third position.

    Sequence similaritiesi

    Contains 1 IQ domain.Curated

    Keywords - Domaini

    Repeat, Transmembrane, Transmembrane helix

    Phylogenomic databases

    eggNOGiCOG1226.
    GeneTreeiENSGT00560000076721.
    HOGENOMiHOG000231755.
    HOVERGENiHBG053100.
    InParanoidiO08562.
    KOiK04841.
    OMAiLMNVSQN.
    OrthoDBiEOG7DJSK9.
    PhylomeDBiO08562.
    TreeFamiTF323985.

    Family and domain databases

    Gene3Di1.20.120.350. 4 hits.
    InterProiIPR027359. Channel_four-helix_dom.
    IPR024583. DUF3451.
    IPR005821. Ion_trans_dom.
    IPR000048. IQ_motif_EF-hand-BS.
    IPR001696. Na_channel_asu.
    IPR010526. Na_trans_assoc.
    IPR028803. SCN9A.
    [Graphical view]
    PANTHERiPTHR10037:SF28. PTHR10037:SF28. 1 hit.
    PfamiPF11933. DUF3451. 1 hit.
    PF00520. Ion_trans. 4 hits.
    PF06512. Na_trans_assoc. 1 hit.
    [Graphical view]
    PRINTSiPR00170. NACHANNEL.
    SMARTiSM00015. IQ. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    O08562-1 [UniParc]FASTAAdd to Basket

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    MAMLPPPGPQ SFVHFTKQSL ALIEQRISEE KAKEHKDEKK DDEEEGPKPS     50
    SDLEAGKQLP FIYGDIPPGM VSEPLEDLDP YYADKKTFIV LNKGKAIFRF 100
    NATPALYMLS PFSPLRRISI KILVHSLFSM LIMCTILTNC IFMTLSNPPE 150
    WTKNVEYTFT GIYTFESLIK ILARGFCVGE FTFLRDPWNW LDFVVIVFAY 200
    LTEFVNLGNV SALRTFRVLR ALKTISVIPG LKTIVGALIQ SVKKLSDVMI 250
    LTVFCLSVFA LIGLQLFMGN LKHKCFRKEL EENETLESIM NTAESEEELK 300
    KYFYYLEGSK DALLCGFSTD SGQCPEGYIC VKAGRNPDYG YTSFDTFSWA 350
    FLALFRLMTQ DYWENLYQQT LRAAGKTYMI FFVVVIFLGS FYLINLILAV 400
    VAMAYEEQNQ ANIEEAKQKE LEFQQMLDRL KKEQEEAEAI AAAAAEFTSI 450
    GRSRIMGLSE SSSETSRLSS KSAKERRNRR KKKKQKMSSG EEKGDDEKLS 500
    KSGSEESIRK KSFHLGVEGH HRTREKRLST PNQSPLSIRG SLFSARRSSR 550
    TSLFSFKGRG RDLGSETEFA DDEHSIFGDN ESRRGSLFVP HRPRERRSSN 600
    ISQASRSPPV LPVNGKMHSA VDCNGVVSLV DGPSALMLPN GQLLPEVIID 650
    KATSDDSGTT NQMRKKRLSS SYFLSEDMLN DPHLRQRAMS RASILTNTVE 700
    ELEESRQKCP PWWYRFAHTF LIWNCSPYWI KFKKLIYFIV MDPFVDLAIT 750
    ICIVLNTLFM AMEHHPMTEE FKNVLAVGNL IFTGIFAAEM VLKLIAMDPY 800
    EYFQVGWNIF DSLIVTLSLI ELFLADVEGL SVLRSFRLLR VFKLAKSWPT 850
    LNMLIKIIGN SVGALGNLTL VLAIIVFIFA VVGMQLFGKS YKECVCKINV 900
    DCKLPRWHMN DFFHSFLIVF RVLCGEWIET MWDCMEVAGQ TMCLIVYMMV 950
    MVIGNLVVLN LFLALLLSSF SSDNLTAIEE DTDANNLQIA VARIKRGINY 1000
    VKQTLREFIL KSFSKKPKGS KDTKRTADPN NKKENYISNR TLAEMSKDHN 1050
    FLKEKDRISG YGSSLDKSFM DENDYQSFIH NPSLTVTVPI APGESDLEIM 1100
    NTEELSSDSD SDYSKEKRNR SSSSECSTVD NPLPGEEEAE AEPVNADEPE 1150
    ACFTDGCVRR FPCCQVNVDS GKGKVWWTIR KTCYRIVEHS WFESFIVLMI 1200
    LLSSGALAFE DIYIEKKKTI KIILEYADKI FTYIFILEML LKWVAYGYKT 1250
    YFTNAWCWLD FLIVDVSLVT LVANTLGYSD LGPIKSLRTL RALRPLRALS 1300
    RFEGMRVVVN ALIGAIPSIM NVLLVCLIFW LIFSIMGVNL FAGKFYECVN 1350
    TTDGSRFPTS QVANRSECFA LMNVSGNVRW KNLKVNFDNV GLGYLSLLQV 1400
    ATFKGWMDIM YAAVDSVNVN EQPKYEYSLY MYIYFVIFII FGSFFTLNLF 1450
    IGVIIDNFNQ QKKKLGGQDI FMTEEQKKYY NAMKKLGSKK PQKPIPRPGN 1500
    KFQGCIFDLV TNQAFDITIM VLICLNMVTM MVEKEGQTEY MDYVLHWINM 1550
    VFIILFTGEC VLKLISLRHY YFTVGWNIFD FVVVILSIVG MFLAEMIEKY 1600
    FVSPTLFRVI RLARIGRILR LIKGAKGIRT LLFALMMSLP ALFNIGLLLF 1650
    LVMFIYAIFG MSNFAYVKKE AGINDMFNFE TFGNSMICLF QITTSAGWDG 1700
    LLAPILNSAP PDCDPKKVHP GSSVEGDCGN PSVGIFYFVS YIIISFLVVV 1750
    NMYIAVILEN FSVATEESTE PLSEDDFEMF YEVWEKFDPD ATQFIEFCKL 1800
    SDFAAALDPP LLIAKPNKVQ LIAMDLPMVS GDRIHCLDIL FAFTKRVLGE 1850
    GGEMDSLRSQ MEERFMSANP SKVSYEPITT TLKRKQEEVS ATIIQRAYRR 1900
    YRLRQHVKNI SSIYIKDGDR DDDLPNKEDT VFDNVNENSS PEKTDVTAST 1950
    ISPPSYDSVT KPDQEKYETD KTEKEDKEKD ESRK 1984
    Length:1,984
    Mass (Da):226,039
    Last modified:July 1, 1997 - v1
    Checksum:i386C38B9B5097091
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U79568 mRNA. Translation: AAB50403.1.
    AF000368 mRNA. Translation: AAB80701.1.
    RefSeqiNP_579823.1. NM_133289.1.
    UniGeneiRn.88082.

    Genome annotation databases

    EnsembliENSRNOT00000065126; ENSRNOP00000059170; ENSRNOG00000006639.
    GeneIDi78956.
    KEGGirno:78956.
    UCSCiRGD:69368. rat.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U79568 mRNA. Translation: AAB50403.1 .
    AF000368 mRNA. Translation: AAB80701.1 .
    RefSeqi NP_579823.1. NM_133289.1.
    UniGenei Rn.88082.

    3D structure databases

    ProteinModelPortali O08562.
    ModBasei Search...
    MobiDBi Search...

    Chemistry

    BindingDBi O08562.
    ChEMBLi CHEMBL3312.
    GuidetoPHARMACOLOGYi 584.

    PTM databases

    PhosphoSitei O08562.

    Proteomic databases

    PaxDbi O08562.
    PRIDEi O08562.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSRNOT00000065126 ; ENSRNOP00000059170 ; ENSRNOG00000006639 .
    GeneIDi 78956.
    KEGGi rno:78956.
    UCSCi RGD:69368. rat.

    Organism-specific databases

    CTDi 6335.
    RGDi 69368. Scn9a.

    Phylogenomic databases

    eggNOGi COG1226.
    GeneTreei ENSGT00560000076721.
    HOGENOMi HOG000231755.
    HOVERGENi HBG053100.
    InParanoidi O08562.
    KOi K04841.
    OMAi LMNVSQN.
    OrthoDBi EOG7DJSK9.
    PhylomeDBi O08562.
    TreeFami TF323985.

    Miscellaneous databases

    NextBioi 614368.
    PROi O08562.

    Gene expression databases

    Genevestigatori O08562.

    Family and domain databases

    Gene3Di 1.20.120.350. 4 hits.
    InterProi IPR027359. Channel_four-helix_dom.
    IPR024583. DUF3451.
    IPR005821. Ion_trans_dom.
    IPR000048. IQ_motif_EF-hand-BS.
    IPR001696. Na_channel_asu.
    IPR010526. Na_trans_assoc.
    IPR028803. SCN9A.
    [Graphical view ]
    PANTHERi PTHR10037:SF28. PTHR10037:SF28. 1 hit.
    Pfami PF11933. DUF3451. 1 hit.
    PF00520. Ion_trans. 4 hits.
    PF06512. Na_trans_assoc. 1 hit.
    [Graphical view ]
    PRINTSi PR00170. NACHANNEL.
    SMARTi SM00015. IQ. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Identification of PN1, a predominant voltage-dependent sodium channel expressed principally in peripheral neurons."
      Toledo-Aral J.J., Moss B.L., He Z.J., Koszowski A.G., Whisenand T., Levinson S.R., Wolf J.J., Silos-Santiago I., Halegoua S., Mandel G.
      Proc. Natl. Acad. Sci. U.S.A. 94:1527-1532(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY, SUBCELLULAR LOCATION.
    2. Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
      Tissue: Spinal ganglion.
    3. Lubec G., Kang S.U., Lubec S.
      Submitted (SEP-2007) to UniProtKB
      Cited for: PROTEIN SEQUENCE OF 527-547, IDENTIFICATION BY MASS SPECTROMETRY.
      Strain: Sprague-Dawley.
      Tissue: Brain.

    Entry informationi

    Entry nameiSCN9A_RAT
    AccessioniPrimary (citable) accession number: O08562
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 23, 2004
    Last sequence update: July 1, 1997
    Last modified: October 1, 2014
    This is version 100 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. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3