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P08104 (SCN3A_RAT) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 131. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Sodium channel protein type 3 subunit alpha
Alternative name(s):
Sodium channel protein brain III subunit alpha
Sodium channel protein type III subunit alpha
Voltage-gated sodium channel subtype III
Voltage-gated sodium channel subunit alpha Nav1.3
Gene names
Name:Scn3a
OrganismRattus norvegicus (Rat) [Reference proteome]
Taxonomic identifier10116 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus

Protein attributes

Sequence length1951 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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.

Subunit structure

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

Subcellular location

Membrane; Multi-pass membrane protein.

Domain

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.

Post-translational modification

May be ubiquitinated by NEDD4L; which would promote its endocytosis By similarity.

Phosphorylation at Ser-1452 by PKC in a highly conserved cytoplasmic loop slows inactivation of the sodium channel and reduces peak sodium currents By similarity.

Sequence similarities

Belongs to the sodium channel (TC 1.A.1.10) family. Nav1.3/SCN3A subfamily. [View classification]

Contains 1 IQ domain.

Ontologies

Keywords
   Biological processIon transport
Sodium transport
Transport
   Cellular componentMembrane
   DomainRepeat
Transmembrane
Transmembrane helix
   LigandSodium
   Molecular functionIon channel
Sodium channel
Voltage-gated channel
   PTMGlycoprotein
Phosphoprotein
Ubl conjugation
   Technical term3D-structure
Complete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processcellular response to antibiotic

Inferred from direct assay PubMed 18839021. Source: RGD

membrane depolarization during action potential

Inferred from Biological aspect of Ancestor. Source: RefGenome

nervous system development

Inferred from expression pattern PubMed 19269275. Source: RGD

neuronal action potential

Inferred from direct assay PubMed 15664695. Source: RGD

response to pyrethroid

Inferred from direct assay PubMed 19026681. Source: RGD

response to wounding

Inferred from expression pattern PubMed 14523090. Source: RGD

sensory perception of pain

Inferred from mutant phenotype PubMed 14523090. Source: RGD

sodium ion transmembrane transport

Inferred from direct assay PubMed 15664695. Source: GOC

   Cellular_componentaxon

Inferred from direct assay PubMed 16966585. Source: RGD

neuronal cell body

Inferred from direct assay PubMed 16966585. Source: RGD

voltage-gated sodium channel complex

Inferred from direct assay PubMed 15664695. Source: RGD

   Molecular_functioncalmodulin binding

Inferred from direct assay PubMed 16912065. Source: RGD

protein binding

Inferred from physical interaction PubMed 15317864. Source: RGD

sodium ion binding

Inferred from direct assay PubMed 15664695. Source: RGD

voltage-gated sodium channel activity

Inferred from direct assay PubMed 15664695. Source: RGD

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 19511951Sodium channel protein type 3 subunit alpha
PRO_0000048494

Regions

Topological domain1 – 123123Cytoplasmic Potential
Transmembrane124 – 14724Helical; Name=S1 of repeat I; Potential
Topological domain148 – 1558Extracellular Potential
Transmembrane156 – 17520Helical; Name=S2 of repeat I; Potential
Topological domain176 – 18813Cytoplasmic Potential
Transmembrane189 – 20719Helical; Name=S3 of repeat I; Potential
Topological domain208 – 2136Extracellular Potential
Transmembrane214 – 23320Helical; Voltage-sensor; Name=S4 of repeat I; Potential
Topological domain234 – 24815Cytoplasmic Potential
Transmembrane249 – 27325Helical; Name=S5 of repeat I; Potential
Topological domain274 – 400127Extracellular Potential
Transmembrane401 – 42626Helical; Name=S6 of repeat I; Potential
Topological domain427 – 705279Cytoplasmic Potential
Transmembrane706 – 73025Helical; Name=S1 of repeat II; Potential
Topological domain731 – 74111Extracellular Potential
Transmembrane742 – 76524Helical; Name=S2 of repeat II; Potential
Topological domain766 – 7738Cytoplasmic Potential
Transmembrane774 – 79320Helical; Name=S3 of repeat II; Potential
Topological domain794 – 7996Extracellular Potential
Transmembrane800 – 82021Helical; Voltage-sensor; Name=S4 of repeat II; Potential
Topological domain821 – 83515Cytoplasmic Potential
Transmembrane836 – 85621Helical; Name=S5 of repeat II; Potential
Topological domain857 – 90953Extracellular Potential
Transmembrane910 – 93526Helical; Name=S6 of repeat II; Potential
Topological domain936 – 1152217Cytoplasmic Potential
Transmembrane1153 – 117624Helical; Name=S1 of repeat III; Potential
Topological domain1177 – 118913Extracellular Potential
Transmembrane1190 – 121526Helical; Name=S2 of repeat III; Potential
Topological domain1216 – 12216Cytoplasmic Potential
Transmembrane1222 – 124322Helical; Name=S3 of repeat III; Potential
Topological domain1244 – 12474Extracellular Potential
Transmembrane1248 – 126922Helical; Voltage-sensor; Name=S4 of repeat III; Potential
Topological domain1270 – 128819Cytoplasmic Potential
Transmembrane1289 – 131022Helical; Name=S5 of repeat III; Potential
Topological domain1311 – 139282Extracellular Potential
Transmembrane1393 – 141927Helical; Name=S6 of repeat III; Potential
Topological domain1420 – 147253Cytoplasmic Potential
Transmembrane1473 – 149624Helical; Name=S1 of repeat IV; Potential
Topological domain1497 – 150711Extracellular Potential
Transmembrane1508 – 153124Helical; Name=S2 of repeat IV; Potential
Topological domain1532 – 15376Cytoplasmic Potential
Transmembrane1538 – 156124Helical; Name=S3 of repeat IV; Potential
Topological domain1562 – 157110Extracellular Potential
Transmembrane1572 – 159322Helical; Voltage-sensor; Name=S4 of repeat IV; Potential
Topological domain1594 – 160815Cytoplasmic Potential
Transmembrane1609 – 163123Helical; Name=S5 of repeat IV; Potential
Topological domain1632 – 169766Extracellular Potential
Transmembrane1698 – 172225Helical; Name=S6 of repeat IV; Potential
Topological domain1723 – 1951229Cytoplasmic Potential
Repeat110 – 455346I
Repeat693 – 965273II
Repeat1139 – 1450312III
Repeat1459 – 1757299IV
Domain1851 – 188030IQ

Amino acid modifications

Modified residue14521Phosphoserine; by PKC By similarity
Glycosylation2111N-linked (GlcNAc...) Potential
Glycosylation2901N-linked (GlcNAc...) Potential
Glycosylation2961N-linked (GlcNAc...) Potential
Glycosylation3021N-linked (GlcNAc...) Potential
Glycosylation3071N-linked (GlcNAc...) Potential
Glycosylation3391N-linked (GlcNAc...) Potential
Glycosylation13171N-linked (GlcNAc...) Potential
Glycosylation13311N-linked (GlcNAc...) Potential

Secondary structure

... 1951
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P08104 [UniParc].

Last modified August 1, 1988. Version 1.
Checksum: 74E5E851524BD10E

FASTA1,951221,387
        10         20         30         40         50         60 
MAQALLVPPG PESFRLFTRE SLAAIEKRAA EEKAKKPKKE QDIDDENKPK PNSDLEAGKN 

        70         80         90        100        110        120 
LPFIYGDIPP EMVSEPLEDL DPYYVSKKTF VVLNKGKAIF RFSATSALYI LTPLNPVRKI 

       130        140        150        160        170        180 
AIKILVHSLF SMLIMCTILT NCVFMTLSNP PDWTKNVEYT FTGIYTFESL IKILARGFCL 

       190        200        210        220        230        240 
EDFTFLRDPW NWLDFSVIVM AYVTEFVDLG NVSALRTFRV LRALKTISVI PGLKTIVGAL 

       250        260        270        280        290        300 
IQSVKKLSDV MILTVFCLSV FALIGLQLFM GNLRNKCSQW PPSDSAFETN TTSYFNGTMD 

       310        320        330        340        350        360 
SNGTFVNVTM STFNWKDYIA DDSHFYVLDG QKDPLLCGNG SDAGQCPEGY ICVKAGRNPN 

       370        380        390        400        410        420 
YGYTSFDTFS WAFLSLFRLM TQDYWENLYQ LTLRAAGKTY MIFFVLVIFL GSFYLVNLIL 

       430        440        450        460        470        480 
AVVAMAYEEQ NQATLEEAEQ KEAEFQQMLE QLKKQQEEAQ AVAAASAASR DFSGIGGLGE 

       490        500        510        520        530        540 
LLESSSEASK LSSKSAKEWR NRRKKRRQRE HLEGNHRADG DRFPKSESED SVKRRSFLLS 

       550        560        570        580        590        600 
LDGNPLTGDK KLCSPHQSLL SIRGSLFSPR RNSKTSIFSF RGRAKDVGSE NDFADDEHST 

       610        620        630        640        650        660 
FEDSESRRDS LFVPHRPGER RNSNGTTTET EVRKRRLSSY QISMEMLEDS SGRQRSMSIA 

       670        680        690        700        710        720 
SILTNTMEEL EESRQKCPPC WYRFANVFLI WDCCDAWLKV KHLVNLIVMD PFVDLAITIC 

       730        740        750        760        770        780 
IVLNTLFMAM EHYPMTQQFS SVLTVGNLVF TGIFTAEMVL KIIAMDPYYY FQEGWNIFDG 

       790        800        810        820        830        840 
IIVSLSLMEL GLANVEGLSV LRSFRLLRVF KLAKSWPTLN MLIKIIGNSV GALGNLTLVL 

       850        860        870        880        890        900 
AIIVFIFAVV GMQLFGKSYK ECVCKINVDC KLPRWHMNDF FHSFLIVFRV LCGEWIETMW 

       910        920        930        940        950        960 
DCMEVAGQTM CLIVFMLVMV IGNLVVLNLF LALLLSSFSS DNLAATDDDN EMNNLQIAVG 

       970        980        990       1000       1010       1020 
RMQKGIDFVK NKIRECFRKA FFRKPKVIEI QEGNKIDSCM SNNTGIEISK ELNYLKDGNG 

      1030       1040       1050       1060       1070       1080 
TTSGVGTGSS VEKYVIDEND YMSFINNPSL TVTVPIAVGE SDFENLNTEE FSSESELEES 

      1090       1100       1110       1120       1130       1140 
KEKLNATSSS EGSTVDVAPP REGEQAEIEP EEDLKPEACF TEGCIKKFPF CQVSTEEGKG 

      1150       1160       1170       1180       1190       1200 
KIWWNLRKTC YSIVEHNWFE TFIVFMILLS SGALAFEDIY IEQRKTIKTM LEYADKVFTY 

      1210       1220       1230       1240       1250       1260 
IFILEMLLKW VAYGFQTYFT NAWCWLDFLI VDVSLVSLVA NALGYSELGA IKSLRTLRAL 

      1270       1280       1290       1300       1310       1320 
RPLRALSRFE GMRVVVNALV GAIPSIMNVL LVCLIFWLIF SIMGVNLFAG KFYHCVNTTT 

      1330       1340       1350       1360       1370       1380 
GNMFEIKEVN NFSDCQALGK QARWKNVKVN FDNVGAGYLA LLQVATFKGW MDIMYAAVDS 

      1390       1400       1410       1420       1430       1440 
RDVKLQPIYE ENLYMYLYFV IFIIFGSFFT LNLFIGVIID NFNQQKKKFG GQDIFMTEEQ 

      1450       1460       1470       1480       1490       1500 
KKYYNAMKKL GSKKPQKPIP RPANKFQGMV FDFVTRQVFD ISIMILICLN MVTMMVETDD 

      1510       1520       1530       1540       1550       1560 
QSKYMTLVLS RINLVFIVLF TGEFLLKLIS LRYYYFTIGW NIFDFVVVIL SIVGMFLAEL 

      1570       1580       1590       1600       1610       1620 
IEKYFVSPTL FRVIRLARIG RILRLIKGAK GIRTLLFALM MSLPALFNIG LLLFLVMFIY 

      1630       1640       1650       1660       1670       1680 
AIFGMSNFAY VKKEAGIDDM FNFETFGNSM ICLFQITTSA GWDGLLAPIL NSAPPDCDPD 

      1690       1700       1710       1720       1730       1740 
AIHPGSSVKG DCGNPSVGIF FFVSYIIISF LVVVNMYIAV ILENFSVATE ESAEPLSEDD 

      1750       1760       1770       1780       1790       1800 
FEMFYEVWEK FDPDATQFIE FCKLSDFAAA LDPPLLIAKP NKVQLIAMDL PMVSGDRIHC 

      1810       1820       1830       1840       1850       1860 
LDILFAFTKR VLGESGEMDA LRIQMEDRFM ASNPSKVSYE PITTTLKRKQ EEVSAAIIQR 

      1870       1880       1890       1900       1910       1920 
NYRCYLLKQR LKNISSKYDK ETIKGRIDLP IKGDMVIDKL NGNSTPEKTD GSSSTTSPPS 

      1930       1940       1950 
YDSVTKPDKE KFEKDKPEKE IKGKEVRENQ K 

« Hide

References

[1]"Primary structure of rat brain sodium channel III deduced from the cDNA sequence."
Kayano T., Noda M., Flockerzi V., Takahashi H., Numa S.
FEBS Lett. 228:187-194(1988) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA].
Strain: Wistar.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
Y00766 mRNA. Translation: CAA68735.1.
PIRS00320.
RefSeqNP_037251.1. NM_013119.1.
UniGeneRn.87394.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1QG9NMR-A156-176[»]
ProteinModelPortalP08104.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid269080. 2 interactions.
STRING10116.ENSRNOP00000006646.

Chemistry

BindingDBP08104.
ChEMBLCHEMBL2095171.

Protein family/group databases

TCDB1.A.1.10.1. the voltage-gated ion channel (vic) superfamily.

Proteomic databases

PaxDbP08104.
PRIDEP08104.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID497770.
KEGGrno:497770.

Organism-specific databases

CTD6328.
RGD3635. Scn3a.

Phylogenomic databases

eggNOGCOG1226.
HOVERGENHBG053100.
KOK04836.
PhylomeDBP08104.

Enzyme and pathway databases

BRENDA2.4.1.19. 2814.

Gene expression databases

GenevestigatorP08104.

Family and domain databases

Gene3D1.20.120.350. 4 hits.
InterProIPR027359. Channel_four-helix_dom.
IPR024583. DUF3451.
IPR005821. Ion_trans_dom.
IPR000048. IQ_motif_EF-hand-BS.
IPR028808. Na_channel_a3su.
IPR001696. Na_channel_asu.
IPR010526. Na_trans_assoc.
[Graphical view]
PANTHERPTHR10037:SF200. PTHR10037:SF200. 1 hit.
PfamPF11933. DUF3451. 1 hit.
PF00520. Ion_trans. 4 hits.
PF06512. Na_trans_assoc. 1 hit.
[Graphical view]
PRINTSPR00170. NACHANNEL.
SMARTSM00015. IQ. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP08104.
NextBio697756.
PROP08104.

Entry information

Entry nameSCN3A_RAT
AccessionPrimary (citable) accession number: P08104
Entry history
Integrated into UniProtKB/Swiss-Prot: August 1, 1988
Last sequence update: August 1, 1988
Last modified: June 11, 2014
This is version 131 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references