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Q9R053 (SCNBA_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 99. 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 11 subunit alpha
Alternative name(s):
NaN
Sensory neuron sodium channel 2
Sodium channel protein type XI subunit alpha
Voltage-gated sodium channel subunit alpha Nav1.9
Gene names
Name:Scn11a
Synonyms:Nan, Nat, Sns2
OrganismMus musculus (Mouse) [Reference proteome]
Taxonomic identifier10090 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus

Protein attributes

Sequence length1765 AA.
Sequence statusComplete.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

This protein 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 sodium ions may pass in accordance with their electrochemical gradient. It is a tetrodotoxin-resistant sodium channel isoform. Also involved, with the contribution of the receptor tyrosine kinase NTRK2, in rapid BDNF-evoked neuronal depolarization By similarity.

Subunit structure

The voltage-resistant sodium channel consists of an ion conducting pore forming alpha-subunit regulated by one or more auxiliary subunits SCN1B, SCN2B and SCN3B.

Subcellular location

Membrane; Multi-pass membrane protein By similarity.

Tissue specificity

Expressed in the dorsal root ganglia (C-fiber neurons), spinal cord, trigeminal ganglia, testis, ovary, uterus and small intestine. Ref.2

Developmental stage

Expressed in embryo at 15 dpc onwards. Ref.2

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.

Sequence similarities

Belongs to the sodium channel (TC 1.A.1.10) family. Nav1.9/SCN11A subfamily. [View classification]

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 17651765Sodium channel protein type 11 subunit alpha
PRO_0000048511

Regions

Transmembrane127 – 14822Helical; Name=S1 of repeat I; By similarity
Transmembrane160 – 17920Helical; Name=S2 of repeat I; By similarity
Transmembrane192 – 21120Helical; Name=S3 of repeat I; By similarity
Transmembrane220 – 23920Helical; Voltage-sensor; Name=S4 of repeat I; By similarity
Transmembrane256 – 26914Helical; Name=S5 of repeat I; By similarity
Transmembrane375 – 40026Helical; Name=S6 of repeat I; By similarity
Transmembrane571 – 59424Helical; Name=S1 of repeat II; By similarity
Transmembrane606 – 62924Helical; Name=S2 of repeat II; By similarity
Transmembrane638 – 65922Helical; Name=S3 of repeat II; By similarity
Transmembrane665 – 68420Helical; Voltage-sensor; Name=S4 of repeat II; By similarity
Transmembrane700 – 72223Helical; Name=S5 of repeat II; By similarity
Transmembrane774 – 79926Helical; Name=S6 of repeat II; By similarity
Transmembrane1031 – 105323Helical; Name=S1 of repeat III; By similarity
Transmembrane1068 – 109326Helical; Name=S2 of repeat III; By similarity
Transmembrane1100 – 111718Helical; Name=S3 of repeat III; By similarity
Transmembrane1119 – 114022Helical; Voltage-sensor; Name=S4 of repeat III; By similarity
Transmembrane1160 – 118122Helical; Name=S5 of repeat III; By similarity
Transmembrane1263 – 128927Helical; Name=S6 of repeat III; By similarity
Transmembrane1343 – 136624Helical; Name=S1 of repeat IV; By similarity
Transmembrane1378 – 140124Helical; Name=S2 of repeat IV; By similarity
Transmembrane1408 – 143124Helical; Name=S3 of repeat IV; By similarity
Transmembrane1441 – 146323Helical; Voltage-sensor; Name=S4 of repeat IV; By similarity
Transmembrane1479 – 150123Helical; Name=S5 of repeat IV; By similarity
Transmembrane1560 – 158425Helical; Name=S6 of repeat IV; By similarity
Repeat126 – 401276I
Repeat570 – 800231II
Repeat1030 – 1290261III
Repeat1342 – 1585244IV

Amino acid modifications

Glycosylation1491N-linked (GlcNAc...) Potential
Glycosylation2171N-linked (GlcNAc...) Potential
Glycosylation3031N-linked (GlcNAc...) Potential
Glycosylation3271N-linked (GlcNAc...) Potential
Glycosylation3361N-linked (GlcNAc...) Potential
Glycosylation6621N-linked (GlcNAc...) Potential
Glycosylation7251N-linked (GlcNAc...) Potential
Glycosylation11881N-linked (GlcNAc...) Potential
Glycosylation11971N-linked (GlcNAc...) Potential
Glycosylation12031N-linked (GlcNAc...) Potential
Glycosylation12111N-linked (GlcNAc...) Potential
Glycosylation16761N-linked (GlcNAc...) Potential

Experimental info

Sequence conflict4001A → G in BAA92154. Ref.2
Sequence conflict4271R → K in BAA92154. Ref.2
Sequence conflict4891N → K in BAA92154. Ref.2
Sequence conflict7381W → R in BAA92154. Ref.2
Sequence conflict7611N → T in BAA92154. Ref.2
Sequence conflict7641E → D in BAA92154. Ref.2
Sequence conflict8431C → R in BAA92154. Ref.2
Sequence conflict1023 – 10242NL → IF in BAA92154. Ref.2
Sequence conflict10541F → L in BAA92154. Ref.2
Sequence conflict11131G → V in AAD53403. Ref.1
Sequence conflict11131G → V in BAA92154. Ref.2
Sequence conflict12121Y → H in BAA92154. Ref.2
Sequence conflict13761K → Q in BAA92154. Ref.2
Sequence conflict14961N → S in BAA92154. Ref.2
Sequence conflict15721F → L in BAA92154. Ref.2

Sequences

Sequence LengthMass (Da)Tools
Q9R053 [UniParc].

Last modified July 27, 2011. Version 2.
Checksum: 0A17EA3B9D86FB9C

FASTA1,765201,385
        10         20         30         40         50         60 
MEERYYPVIF PDERNFRPFT FDSLAAIEKR ITIQKEKKKS KDKAATEPQP RPQLDLKASR 

        70         80         90        100        110        120 
KLPKLYGDVP PDLIAKPLED LDPFYKDHKT FMVLNKKRTI YRFSAKRALF ILGPFNPIRS 

       130        140        150        160        170        180 
FMIRISVHSV FSMFIICTVI INCMFMANNS SVDSRPSSNI PEYVFIGIYV LEAVIKILAR 

       190        200        210        220        230        240 
GFIVDEFSYL RDPWNWLDFI VIGTAIAPCF LGNKVNNLST LRTFRVLRAL KAISVISGLK 

       250        260        270        280        290        300 
VIVGALLRSV KKLVDVMVLT LFCLSIFALV GQQLFMGILS QKCIKDDCGP NAFSNKDCFV 

       310        320        330        340        350        360 
KENDSEDFIM CGNWLGRRSC PDGSTCNKTT FNPDYNYTNF DSFGWSFLAM FRVMTQDSWE 

       370        380        390        400        410        420 
KLYRQILRTS GIYFVFFFVV VIFLGSFYLL NLTLAVVTMA YEEQNRNVAA ETEAKEKMFQ 

       430        440        450        460        470        480 
EAQQLLREEK EALVAMGIDR TSLNSLQASS FSPKKRKFFG SKTRKSFFMR GSKTARASAS 

       490        500        510        520        530        540 
DSEDDASKNP QLLEQTKRLS QNLPVELFDE HVDPLHRQRA LSAVSILTIT MQEQEKSQEP 

       550        560        570        580        590        600 
CFPCGKNLAS KYLVWECSPP WLCIKKVLQT IMTDPFTELA ITICIIVNTV FLAMEHHNMD 

       610        620        630        640        650        660 
NSLKDILKIG NWVFTGIFIA EMCLKIIALD PYHYFRHGWN IFDSIVALVS LADVLFHKLS 

       670        680        690        700        710        720 
KNLSFLASLR VLRVFKLAKS WPTLNTLIKI IGHSVGALGN LTVVLTIVVF IFSVVGMRLF 

       730        740        750        760        770        780 
GAKFNKTCST SPESLRRWHM GDFYHSFLVV FRILCGEWIE NMWECMQEME GSPLCVIVFV 

       790        800        810        820        830        840 
LIMVVGKLVV LNLFIALLLN SFSNEEKDGN PEGETRKTKV QLALDRFSRA FYFMARALQN 

       850        860        870        880        890        900 
FCCKRCRRQN SPKPNEATES FAGESRDTAT LDTRSWKEYD SEMTLYTGQA GAPLAPLAKE 

       910        920        930        940        950        960 
EDDMECCGEC DASPTSQPSE EAQACDLPLK TKRLPSPDDH GVEMEVFSEE DPNLTIQSAR 

       970        980        990       1000       1010       1020 
KKSDAASMLS ECSTIDLNDI FRNLQKTVSP QKQPDRCFPK GLSCIFLCCK TIKKKSPWVL 

      1030       1040       1050       1060       1070       1080 
WWNLRKTCYQ IVKHSWFESF IIFVILLSSG ALIFEDVNLP SRPQVEKLLK CTDNIFTFIF 

      1090       1100       1110       1120       1130       1140 
LLEMILKWVA FGFRKYFTSA WCWLDFLIVV VSGLSLTNLP NLKSFRNLRA LRPLRALSQF 

      1150       1160       1170       1180       1190       1200 
EGMKVVVNAL MSAIPAILNV LLVCLIFWLI FCILGVNFFS GKFGRCINGT DINKYFNASN 

      1210       1220       1230       1240       1250       1260 
VPNQSQCLVS NYTWKVPNVN FDNVGNAYLA LLQVATYKGW LDIMNAAVDS RGKDEQPAFE 

      1270       1280       1290       1300       1310       1320 
ANLYAYLYFV VFIIFGSFFT LNLFIGVIID NFNQQQKKLG GQDIFMTEEQ KKYYNAMKKL 

      1330       1340       1350       1360       1370       1380 
GTKKPQKPIP RPLNKCQAFV FDLVTSQVFD VIILGLIVTN MIIMMAESEG QPNEVKKIFD 

      1390       1400       1410       1420       1430       1440 
ILNIVFVVIF TVECLIKVFA LRQHYFTNGW NLFDCVVVVL SIISTLVSGL ENSNVFPPTL 

      1450       1460       1470       1480       1490       1500 
FRIVRLARIG RILRLVRAAR GIRTLLFALM MSLPSLFNIG LLLFLVMFIY AIFGMNWFSK 

      1510       1520       1530       1540       1550       1560 
VKRGSGIDDI FNFDTFSGSM LCLFQITTSA GWDALLNPML ESKASCNSSS QESCQQPQIA 

      1570       1580       1590       1600       1610       1620 
IVYFVSYIII SFLIVVNMYI AVILENFNTA TEESEDPLGE DDFEIFYEIW EKFDPEATQF 

      1630       1640       1650       1660       1670       1680 
IQYSSLSDFA DALPEPLRVA KPNRFQFLMM DLPMVMGDRL HCMDVLFAFT TRVLGNSSGL 

      1690       1700       1710       1720       1730       1740 
DTMKAMMEEK FMEANPFKKL YEPIVTTTKR KEEEECAAVI QRAYRRHMEK MIKLKLKGRS 

      1750       1760 
SSSLQVFCNG DLSSLDVPKI KVHCD 

« Hide

References

« Hide 'large scale' references
[1]"Coding sequence, genomic organization, and conserved chromosomal localization of the mouse gene Scn11a encoding the sodium channel NaN."
Dib-Hajj S.D., Tyrrell L., Escayg A., Wood P.M., Meisler M.H., Waxman S.G.
Genomics 59:309-318(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA].
Strain: ICR.
Tissue: Trigeminal ganglion.
[2]"Cloning and expression study of the mouse tetrodotoxin-resistant voltage-gated sodium channel alpha subunit NaT/Scn11a."
Ogata K., Jeong S.-Y., Murakami H., Hashida H., Suzuki T., Masuda N., Hirai M., Isahara K., Uchiyama Y., Goto J., Kanazawa I.
Biochem. Biophys. Res. Commun. 267:271-277(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
Tissue: Testis.
[3]"Lineage-specific biology revealed by a finished genome assembly of the mouse."
Church D.M., Goodstadt L., Hillier L.W., Zody M.C., Goldstein S., She X., Bult C.J., Agarwala R., Cherry J.L., DiCuccio M., Hlavina W., Kapustin Y., Meric P., Maglott D., Birtle Z., Marques A.C., Graves T., Zhou S. expand/collapse author list , Teague B., Potamousis K., Churas C., Place M., Herschleb J., Runnheim R., Forrest D., Amos-Landgraf J., Schwartz D.C., Cheng Z., Lindblad-Toh K., Eichler E.E., Ponting C.P.
PLoS Biol. 7:E1000112-E1000112(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: C57BL/6J.
[4]"Patterned electrical activity modulates sodium channel expression in sensory neurons."
Klein J.P., Tendi E.A., Dib-Hajj S.D., Fields R.D., Waxman S.G.
J. Neurosci. Res. 74:192-198(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: INDUCTION.
[5]"Na+ channel Nav1.9: in search of a gating mechanism."
Delmas P., Coste B.
Trends Neurosci. 26:55-57(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: REVIEW.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF118044 mRNA. Translation: AAD53403.1.
AB031389 mRNA. Translation: BAA92154.1.
AC124662 Genomic DNA. No translation available.
AC162937 Genomic DNA. No translation available.
RefSeqNP_036017.3. NM_011887.3.
UniGeneMm.469833.
Mm.89981.

3D structure databases

ProteinModelPortalQ9R053.
SMRQ9R053. Positions 1585-1728.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid204861. 1 interaction.

PTM databases

PhosphoSiteQ9R053.

Proteomic databases

PaxDbQ9R053.
PRIDEQ9R053.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSMUST00000070617; ENSMUSP00000065466; ENSMUSG00000034115.
GeneID24046.
KEGGmmu:24046.
UCSCuc009sbk.1. mouse.

Organism-specific databases

CTD11280.
MGIMGI:1345149. Scn11a.

Phylogenomic databases

eggNOGCOG1226.
GeneTreeENSGT00750000117555.
HOGENOMHOG000231755.
HOVERGENHBG053100.
InParanoidQ9R053.
KOK04843.
OMALENFNTA.
OrthoDBEOG7DJSK9.
TreeFamTF323985.

Gene expression databases

BgeeQ9R053.
CleanExMM_SCN11A.
GenevestigatorQ9R053.

Family and domain databases

Gene3D1.20.120.350. 4 hits.
InterProIPR027359. Channel_four-helix_dom.
IPR005821. Ion_trans_dom.
IPR028821. Na_channel_a11su.
IPR001696. Na_channel_asu.
IPR010526. Na_trans_assoc.
[Graphical view]
PANTHERPTHR10037:SF22. PTHR10037:SF22. 1 hit.
PfamPF00520. Ion_trans. 4 hits.
PF06512. Na_trans_assoc. 1 hit.
[Graphical view]
PRINTSPR00170. NACHANNEL.
ProtoNetSearch...

Other

ChiTaRSSCN11A. mouse.
NextBio303975.
PROQ9R053.
SOURCESearch...

Entry information

Entry nameSCNBA_MOUSE
AccessionPrimary (citable) accession number: Q9R053
Secondary accession number(s): E9QM88, Q9JMD4
Entry history
Integrated into UniProtKB/Swiss-Prot: December 21, 2004
Last sequence update: July 27, 2011
Last modified: April 16, 2014
This is version 99 of the entry and version 2 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

MGD cross-references

Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot