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P04774

- SCN1A_RAT

UniProt

P04774 - SCN1A_RAT

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Protein

Sodium channel protein type 1 subunit alpha

Gene

Scn1a

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.

GO - Molecular functioni

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

GO - Biological processi

  1. membrane depolarization during action potential Source: RefGenome
  2. neuronal action potential Source: RGD
  3. 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 1 subunit alpha
Alternative name(s):
Sodium channel protein brain I subunit alpha
Sodium channel protein type I subunit alpha
Voltage-gated sodium channel subunit alpha Nav1.1
Gene namesi
Name:Scn1a
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494: Unplaced

Organism-specific databases

RGDi69364. Scn1a.

Subcellular locationi

GO - Cellular componenti

  1. plasma membrane Source: RGD
  2. voltage-gated sodium channel complex Source: RGD
  3. Z disc Source: BHF-UCL
Complete GO annotation...

Keywords - Cellular componenti

Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 20092009Sodium channel protein type 1 subunit alphaPRO_0000048490Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi211 – 2111N-linked (GlcNAc...)Sequence Analysis
Glycosylationi284 – 2841N-linked (GlcNAc...)Sequence Analysis
Glycosylationi295 – 2951N-linked (GlcNAc...)Sequence Analysis
Glycosylationi301 – 3011N-linked (GlcNAc...)Sequence Analysis
Glycosylationi306 – 3061N-linked (GlcNAc...)Sequence Analysis
Glycosylationi338 – 3381N-linked (GlcNAc...)Sequence Analysis
Modified residuei470 – 4701Phosphoserine1 Publication
Modified residuei551 – 5511Phosphoserine1 Publication
Modified residuei607 – 6071Phosphoserine1 Publication
Glycosylationi1378 – 13781N-linked (GlcNAc...)Sequence Analysis
Glycosylationi1392 – 13921N-linked (GlcNAc...)Sequence Analysis
Glycosylationi1403 – 14031N-linked (GlcNAc...)Sequence Analysis
Modified residuei1516 – 15161Phosphoserine; by PKCBy similarity

Post-translational modificationi

Phosphorylation at Ser-1516 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

Proteomic databases

PaxDbiP04774.
PRIDEiP04774.

Expressioni

Gene expression databases

GenevestigatoriP04774.

Interactioni

Subunit structurei

The sodium channel consists of a large polypeptide and 2-3 smaller ones. This sequence represents a large polypeptide. Interacts with FGF13; may regulate SCN1A activity By similarity.By similarity

Protein-protein interaction databases

BioGridi249530. 1 interaction.
STRINGi10116.ENSRNOP00000051071.

Structurei

3D structure databases

ProteinModelPortaliP04774.
ModBaseiSearch...
MobiDBiSearch...

Topological domain

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 123123CytoplasmicSequence AnalysisAdd
BLAST
Topological domaini148 – 1558ExtracellularSequence Analysis
Topological domaini176 – 18813CytoplasmicSequence AnalysisAdd
BLAST
Topological domaini208 – 2136ExtracellularSequence Analysis
Topological domaini234 – 24916CytoplasmicSequence AnalysisAdd
BLAST
Topological domaini274 – 399126ExtracellularSequence AnalysisAdd
BLAST
Topological domaini426 – 762337CytoplasmicSequence AnalysisAdd
BLAST
Topological domaini788 – 79811ExtracellularSequence AnalysisAdd
BLAST
Topological domaini823 – 8308CytoplasmicSequence Analysis
Topological domaini851 – 8566ExtracellularSequence Analysis
Topological domaini877 – 89216CytoplasmicSequence AnalysisAdd
BLAST
Topological domaini914 – 96653ExtracellularSequence AnalysisAdd
BLAST
Topological domaini993 – 1213221CytoplasmicSequence AnalysisAdd
BLAST
Topological domaini1238 – 125013ExtracellularSequence AnalysisAdd
BLAST
Topological domaini1277 – 12826CytoplasmicSequence Analysis
Topological domaini1305 – 13084ExtracellularSequence Analysis
Topological domaini1331 – 134919CytoplasmicSequence AnalysisAdd
BLAST
Topological domaini1378 – 145679ExtracellularSequence AnalysisAdd
BLAST
Topological domaini1484 – 153653CytoplasmicSequence AnalysisAdd
BLAST
Topological domaini1561 – 157111ExtracellularSequence AnalysisAdd
BLAST
Topological domaini1596 – 16016CytoplasmicSequence Analysis
Topological domaini1626 – 163510ExtracellularSequence Analysis
Topological domaini1658 – 167215CytoplasmicSequence AnalysisAdd
BLAST
Topological domaini1696 – 176166ExtracellularSequence AnalysisAdd
BLAST
Topological domaini1787 – 2009223CytoplasmicSequence AnalysisAdd
BLAST

Transmembrane

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei124 – 14724Helical; Name=S1 of repeat IAdd
BLAST
Transmembranei156 – 17520Helical; Name=S2 of repeat IAdd
BLAST
Transmembranei189 – 20719Helical; Name=S3 of repeat IAdd
BLAST
Transmembranei214 – 23320Helical; Voltage-sensor; Name=S4 of repeat IAdd
BLAST
Transmembranei250 – 27324Helical; Name=S5 of repeat IAdd
BLAST
Transmembranei400 – 42526Helical; Name=S6 of repeat IAdd
BLAST
Transmembranei763 – 78725Helical; Name=S1 of repeat IIAdd
BLAST
Transmembranei799 – 82224Helical; Name=S2 of repeat IIAdd
BLAST
Transmembranei831 – 85020Helical; Name=S3 of repeat IIAdd
BLAST
Transmembranei857 – 87620Helical; Voltage-sensor; Name=S4 of repeat IIAdd
BLAST
Transmembranei893 – 91321Helical; Name=S5 of repeat IIAdd
BLAST
Transmembranei967 – 99226Helical; Name=S6 of repeat IIAdd
BLAST
Transmembranei1214 – 123724Helical; Name=S1 of repeat IIIAdd
BLAST
Transmembranei1251 – 127626Helical; Name=S2 of repeat IIIAdd
BLAST
Transmembranei1283 – 130422Helical; Name=S3 of repeat IIIAdd
BLAST
Transmembranei1309 – 133022Helical; Voltage-sensor; Name=S4 of repeat IIIAdd
BLAST
Transmembranei1350 – 137728Helical; Name=S5 of repeat IIIAdd
BLAST
Transmembranei1457 – 148327Helical; Name=S6 of repeat IIIAdd
BLAST
Transmembranei1537 – 156024Helical; Name=S1 of repeat IVAdd
BLAST
Transmembranei1572 – 159524Helical; Name=S2 of repeat IVAdd
BLAST
Transmembranei1602 – 162524Helical; Name=S3 of repeat IVAdd
BLAST
Transmembranei1636 – 165722Helical; Voltage-sensor; Name=S4 of repeat IVAdd
BLAST
Transmembranei1673 – 169523Helical; Name=S5 of repeat IVAdd
BLAST
Transmembranei1762 – 178625Helical; Name=S6 of repeat IVAdd
BLAST

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati110 – 454345IAdd
BLAST
Repeati750 – 1022273IIAdd
BLAST
Repeati1200 – 1514315IIIAdd
BLAST
Repeati1523 – 1821299IVAdd
BLAST
Domaini1915 – 194430IQAdd
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.
HOGENOMiHOG000231755.
HOVERGENiHBG053100.
InParanoidiP04774.
KOiK04833.
PhylomeDBiP04774.

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.
IPR008051. Na_channel_a1su.
IPR001696. Na_channel_asu.
IPR010526. Na_trans_assoc.
[Graphical view]
PfamiPF11933. DUF3451. 1 hit.
PF00520. Ion_trans. 4 hits.
PF06512. Na_trans_assoc. 1 hit.
[Graphical view]
PRINTSiPR00170. NACHANNEL.
PR01664. NACHANNEL1.
SMARTiSM00015. IQ. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P04774-1 [UniParc]FASTAAdd to Basket

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        10         20         30         40         50
MEQTVLVPPG PDSFNFFTRE SLAAIERRIA EEKAKNPKPD KKDDDENGPK
60 70 80 90 100
PNSDLEAGKN LPFIYGDIPP EMVSEPLEDL DPYYINKKTF IVLNKGKAIF
110 120 130 140 150
RFSATSALYI LTPFNPLRKI AIKILVHSLF SMLIMCTILT NCVFMTMSNP
160 170 180 190 200
PDWTKNVEYT FTGIYTFESL IKIIARGFCL EDFTFLRDPW NWLDFTVITF
210 220 230 240 250
AYVTEFVDLG NVSALRTFRV LRALKTISVI PGLKTIVGAL IQSVKKLSDV
260 270 280 290 300
MILTVFCLSV FALIGLQLFM GNLRNKCVQW PPTNASLEEH SIEKNVTTDY
310 320 330 340 350
NGTLVNETVF EFDWKSYIQD SRYHYFLEGV LDALLCGNSS DAGQCPEGYM
360 370 380 390 400
CVKAGRNPNY GYTSFDTFSW AFLSLFRLMT QDFWENLYQL TLRAAGKTYM
410 420 430 440 450
IFFVLVIFLG SFYLINLILA VVAMAYEEQN QATLEEAEQK EAEFQQMLEQ
460 470 480 490 500
LKKQQEAAQQ AAAATASEHS REPSAAGRLS DSSSEASKLS SKSAKERRNR
510 520 530 540 550
RKKRKQKEQS GGEEKDDDEF HKSESEDSIR RKGFRFSIEG NRLTYEKRYS
560 570 580 590 600
SPHQSLLSIR GSLFSPRRNS RTSLFSFRGR AKDVGSENDF ADDEHSTFED
610 620 630 640 650
NESRRDSLFV PRRHGERRNS NLSQTSRSSR MLAGLPANGK MHSTVDCNGV
660 670 680 690 700
VSLVGGPSVP TSPVGQLLPE VIIDKPATDD NGTTTETEMR KRRSSSFHVS
710 720 730 740 750
MDFLEDPSQR QRAMSIASIL TNTVEELEES RQKCPPCWYK FSNIFLIWDC
760 770 780 790 800
SPYWLKVKHI VNLVVMDPFV DLAITICIVL NTLFMAMEHY PMTEHFNHVL
810 820 830 840 850
TVGNLVFTGI FTAEMFLKII AMDPYYYFQE GWNIFDGFIV TLSLVELGLA
860 870 880 890 900
NVEGLSVLRS FRLLRVFKLA KSWPTLNMLI KIIGNSVGAL GNLTLVLAII
910 920 930 940 950
VFIFAVVGMQ LFGKSYKDCV CKIATDCKLP RWHMNDFFHS FLIVFRVLCG
960 970 980 990 1000
EWIETMWDCM EVAGQAMCLT VFMMVMVIRN LVVLNLFLAL LLSSFSADNL
1010 1020 1030 1040 1050
AATDDDNEMN NLQIAVDRMH KGVAYVKRKI YEFIQQSFVR KQKILDEIKP
1060 1070 1080 1090 1100
LDDLNNRKDN CTSNHTTEIG KDLDCLKDVN GTTSGIGTGS SVEKYIIDES
1110 1120 1130 1140 1150
DYMSFINNPS LTVTVPIAVG ESDFENLNTE DFSSESDLEE SKEKLNESSS
1160 1170 1180 1190 1200
SSEGSTVDIG APAEEQPVME PEETLEPEAC FTEGCVQRFK CCQISVEEGR
1210 1220 1230 1240 1250
GKQWWNLRRT CFRIVEHNWF ETFIVFMILL SSGALAFEDI YIDQRKTIKT
1260 1270 1280 1290 1300
MLEYADKVFT YIFILEMLLK WVAYGYQTYF TNAWCWLDFL IVDVSLVSLT
1310 1320 1330 1340 1350
ANALGYSELG AIKSLRTLRA LRPLRALSRF EGMRVVVNAL LGAIPSIMNV
1360 1370 1380 1390 1400
LLVCLIFWLI FSIMGVNLFA GKFYHCVNTT TGDTFEITEV NNHSDCLKLI
1410 1420 1430 1440 1450
ERNETARWKN VKVNFDNVGF GYLSLLQVAT FKGWMDIMYA AVDSRNVELQ
1460 1470 1480 1490 1500
PKYEESLYMY LYFVIFIIFG SFFTLNLFIG VIIDNFNQQK KKFGGQDIFM
1510 1520 1530 1540 1550
TEEQKKYYNA MKKLGSKKPQ KPIPRPGNKF QGMVFDFVTR QVFDISIMIL
1560 1570 1580 1590 1600
ICLNMVTMMV ETDDQSDYVT SILSRINLVF IVLFTGECVL KLISLRHYYF
1610 1620 1630 1640 1650
TIGWNIFDFV VVILSIVGMF LAELIEKYFV SPTLFRVIRL ARIGRILRLI
1660 1670 1680 1690 1700
KGAKGIRTLL FALMMSLPAL FNIGLLLFLV MFIYAIFGMS NFAYVKREVG
1710 1720 1730 1740 1750
IDDMFNFETF GNSMICLFQI TTSAGWDGLL APILNSKPPD CDPNKVNPGS
1760 1770 1780 1790 1800
SVKGDCGNPS VGIFFFVSYI IISFLVVVNM YIAVILENFS VATEESAEPL
1810 1820 1830 1840 1850
SEDDFEMFYE VWEKFDPDAT QFMEFEKLSQ FAAALEPPLN LPQPNKLQLI
1860 1870 1880 1890 1900
AMDLPMVSGD RIHCLDILFA FTKRVLGESG EMDALRIQME ERFMASNPSK
1910 1920 1930 1940 1950
VSYQPITTTL KRKQEEVSAV IIQRAYRRHL LKRTVKQASF TYNKNKLKGG
1960 1970 1980 1990 2000
ANLLVKEDMI IDRINENSIT EKTDLTMSTA ACPPSYDRVT KPIVEKHEQE

GKDEKAKGK
Length:2,009
Mass (Da):228,770
Last modified:August 13, 1987 - v1
Checksum:i6808466F6368373B
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X03638 mRNA. Translation: CAA27286.1.
M22253 mRNA. Translation: AAA79965.1.
PIRiA25019.
RefSeqiNP_110502.1. NM_030875.1.
UniGeneiRn.32079.

Genome annotation databases

GeneIDi81574.
KEGGirno:81574.
UCSCiRGD:69364. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X03638 mRNA. Translation: CAA27286.1 .
M22253 mRNA. Translation: AAA79965.1 .
PIRi A25019.
RefSeqi NP_110502.1. NM_030875.1.
UniGenei Rn.32079.

3D structure databases

ProteinModelPortali P04774.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 249530. 1 interaction.
STRINGi 10116.ENSRNOP00000051071.

Chemistry

BindingDBi P04774.
ChEMBLi CHEMBL4906.
GuidetoPHARMACOLOGYi 578.

Proteomic databases

PaxDbi P04774.
PRIDEi P04774.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 81574.
KEGGi rno:81574.
UCSCi RGD:69364. rat.

Organism-specific databases

CTDi 6323.
RGDi 69364. Scn1a.

Phylogenomic databases

eggNOGi COG1226.
HOGENOMi HOG000231755.
HOVERGENi HBG053100.
InParanoidi P04774.
KOi K04833.
PhylomeDBi P04774.

Miscellaneous databases

NextBioi 615093.
PROi P04774.

Gene expression databases

Genevestigatori P04774.

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.
IPR008051. Na_channel_a1su.
IPR001696. Na_channel_asu.
IPR010526. Na_trans_assoc.
[Graphical view ]
Pfami PF11933. DUF3451. 1 hit.
PF00520. Ion_trans. 4 hits.
PF06512. Na_trans_assoc. 1 hit.
[Graphical view ]
PRINTSi PR00170. NACHANNEL.
PR01664. NACHANNEL1.
SMARTi SM00015. IQ. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Existence of distinct sodium channel messenger RNAs in rat brain."
    Noda M., Ikeda T., Kayano T., Suzuki H., Takeshima H., Kurasaki M., Takahashi H., Numa S.
    Nature 320:188-192(1986) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. "Structure and function of sodium channel."
    Noda M., Numa S.
    J. Recept. Res. 7:467-497(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  3. "Developmentally regulated alternative RNA splicing of rat brain sodium channel mRNAs."
    Sarao R., Gupta S.K., Auld V.J., Dunn R.J.
    Nucleic Acids Res. 19:5673-5679(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 177-253.
    Strain: Sprague-Dawley.
    Tissue: Brain.
  4. "Multisite phosphorylation of voltage-gated sodium channel alpha subunits from rat brain."
    Berendt F.J., Park K.S., Trimmer J.S.
    J. Proteome Res. 9:1976-1984(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION AT SER-470; SER-551 AND SER-607.

Entry informationi

Entry nameiSCN1A_RAT
AccessioniPrimary (citable) accession number: P04774
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 13, 1987
Last sequence update: August 13, 1987
Last modified: October 29, 2014
This is version 129 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, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3