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O08562

- SCN9A_RAT

UniProt

O08562 - SCN9A_RAT

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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

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.

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
Complete GO annotation...

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

Topology

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

GO - Cellular componenti

  1. voltage-gated sodium channel complex Source: RGD
Complete GO annotation...

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...) Reviewed prediction
Glycosylationi283 – 2831N-linked (GlcNAc...) Reviewed prediction
Glycosylationi1350 – 13501N-linked (GlcNAc...) Reviewed prediction
Glycosylationi1364 – 13641N-linked (GlcNAc...) Reviewed prediction
Glycosylationi1373 – 13731N-linked (GlcNAc...) Reviewed prediction
Modified residuei1488 – 14881Phosphoserine; by PKC By similarity

Post-translational modificationi

Ubiquitinated by NEDD4L; which may promote its endocytosis. Does not seem to be ubiquitinated by NEDD4 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.

Structurei

3D structure databases

ProteinModelPortaliO08562.

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.

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: June 11, 2014
This is version 99 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

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