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Protein

Thymic stromal cotransporter homolog

Gene

SLC46A2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

May act as a transporter.By similarity

GO - Molecular functioni

  • symporter activity Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Transport

Protein family/group databases

TCDBi2.A.1.50.2. the major facilitator superfamily (mfs).

Names & Taxonomyi

Protein namesi
Recommended name:
Thymic stromal cotransporter homolog
Alternative name(s):
Solute carrier family 46 member 2
Gene namesi
Name:SLC46A2
Synonyms:TSCOT
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 9

Organism-specific databases

HGNCiHGNC:16055. SLC46A2.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 2323CytoplasmicSequence analysisAdd
BLAST
Transmembranei24 – 4421Helical; Name=1Sequence analysisAdd
BLAST
Topological domaini45 – 7834ExtracellularSequence analysisAdd
BLAST
Transmembranei79 – 9921Helical; Name=2Sequence analysisAdd
BLAST
Topological domaini100 – 1089CytoplasmicSequence analysis
Transmembranei109 – 12921Helical; Name=3Sequence analysisAdd
BLAST
Topological domaini130 – 1389ExtracellularSequence analysis
Transmembranei139 – 15921Helical; Name=4Sequence analysisAdd
BLAST
Topological domaini160 – 17213CytoplasmicSequence analysisAdd
BLAST
Transmembranei173 – 19321Helical; Name=5Sequence analysisAdd
BLAST
Topological domaini194 – 20512ExtracellularSequence analysisAdd
BLAST
Transmembranei206 – 22621Helical; Name=6Sequence analysisAdd
BLAST
Topological domaini227 – 28256CytoplasmicSequence analysisAdd
BLAST
Transmembranei283 – 30321Helical; Name=7Sequence analysisAdd
BLAST
Topological domaini304 – 32017ExtracellularSequence analysisAdd
BLAST
Transmembranei321 – 34121Helical; Name=8Sequence analysisAdd
BLAST
Topological domaini342 – 3476CytoplasmicSequence analysis
Transmembranei348 – 36821Helical; Name=9Sequence analysisAdd
BLAST
Topological domaini369 – 3702ExtracellularSequence analysis
Transmembranei371 – 39121Helical; Name=10Sequence analysisAdd
BLAST
Topological domaini392 – 40615CytoplasmicSequence analysisAdd
BLAST
Transmembranei407 – 42721Helical; Name=11Sequence analysisAdd
BLAST
Topological domaini428 – 4358ExtracellularSequence analysis
Transmembranei436 – 45621Helical; Name=12Sequence analysisAdd
BLAST
Topological domaini457 – 47519CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

  • cell surface Source: Ensembl
  • integral component of membrane Source: UniProtKB
  • plasma membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA162403790.

Polymorphism and mutation databases

BioMutaiSLC46A2.
DMDMi83287921.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 475475Thymic stromal cotransporter homologPRO_0000065659Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi55 – 551N-linked (GlcNAc...)Sequence analysis

Post-translational modificationi

Glycosylated.By similarity

Keywords - PTMi

Glycoprotein

Proteomic databases

MaxQBiQ9BY10.
PaxDbiQ9BY10.
PRIDEiQ9BY10.

PTM databases

iPTMnetiQ9BY10.
PhosphoSiteiQ9BY10.

Expressioni

Tissue specificityi

Strongly expressed in the adult thymus. Expressed in spleen, lymph nodes, thymus, PBL, bone marrow and fetal liver.1 Publication

Gene expression databases

BgeeiQ9BY10.
CleanExiHS_SLC46A2.
ExpressionAtlasiQ9BY10. baseline and differential.
GenevisibleiQ9BY10. HS.

Organism-specific databases

HPAiHPA020098.
HPA020104.

Interactioni

Protein-protein interaction databases

STRINGi9606.ENSP00000363345.

Structurei

3D structure databases

ProteinModelPortaliQ9BY10.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410ISYW. Eukaryota.
ENOG410YS8M. LUCA.
GeneTreeiENSGT00530000063076.
HOGENOMiHOG000231710.
HOVERGENiHBG054696.
InParanoidiQ9BY10.
KOiK14614.
OMAiYAVGHPP.
OrthoDBiEOG7DNNVC.
PhylomeDBiQ9BY10.
TreeFamiTF315701.

Family and domain databases

InterProiIPR011701. MFS.
IPR020846. MFS_dom.
IPR001958. Tet-R_TetA/multi-R_MdtG.
[Graphical view]
PfamiPF07690. MFS_1. 1 hit.
[Graphical view]
PRINTSiPR01035. TCRTETA.
SUPFAMiSSF103473. SSF103473. 1 hit.

Sequencei

Sequence statusi: Complete.

Q9BY10-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSPEVTCPRR GHLPRFHPRT WVEPVVASSQ VAASLYDAGL LLVVKASYGT
60 70 80 90 100
GGSSNHSASP SPRGALEDQQ QRAISNFYII YNLVVGLSPL LSAYGLGWLS
110 120 130 140 150
DRYHRKISIC MSLLGFLLSR LGLLLKVLLD WPVEVLYGAA ALNGLFGGFS
160 170 180 190 200
AFWSGVMALG SLGSSEGRRS VRLILIDLML GLAGFCGSMA SGHLFKQMAG
210 220 230 240 250
HSGQGLILTA CSVSCASFAL LYSLLVLKVP ESVAKPSQEL PAVDTVSGTV
260 270 280 290 300
GTYRTLDPDQ LDQQYAVGHP PSPGKAKPHK TTIALLFVGA IIYDLAVVGT
310 320 330 340 350
VDVIPLFVLR EPLGWNQVQV GYGMAAGYTI FITSFLGVLV FSRCFRDTTM
360 370 380 390 400
IMIGMVSFGS GALLLAFVKE TYMFYIARAV MLFALIPVTT IRSAMSKLIK
410 420 430 440 450
GSSYGKVFVI LQLSLALTGV VTSTLYNKIY QLTMDMFVGS CFALSSFLSF
460 470
LAIIPISIVA YKQVPLSPYG DIIEK
Length:475
Mass (Da):51,067
Last modified:June 1, 2001 - v1
Checksum:i3C4DDD6C48356054
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti26 – 261V → M in AAH48285 (PubMed:15489334).Curated
Sequence conflicti380 – 3801V → A in BAB70960 (PubMed:14702039).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti366 – 3661A → V.
Corresponds to variant rs16917454 [ dbSNP | Ensembl ].
VAR_021050

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF242557 mRNA. Translation: AAK28343.1.
AK055571 mRNA. Translation: BAB70960.1.
AK314414 mRNA. Translation: BAG37035.1.
AL139041 Genomic DNA. Translation: CAI95196.1.
CH878453 Genomic DNA. Translation: EAW50550.1.
BC048285 mRNA. Translation: AAH48285.1.
CCDSiCCDS6786.1.
RefSeqiNP_149040.3. NM_033051.3.
UniGeneiHs.512668.

Genome annotation databases

EnsembliENST00000374228; ENSP00000363345; ENSG00000119457.
GeneIDi57864.
KEGGihsa:57864.
UCSCiuc004bgk.3. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF242557 mRNA. Translation: AAK28343.1.
AK055571 mRNA. Translation: BAB70960.1.
AK314414 mRNA. Translation: BAG37035.1.
AL139041 Genomic DNA. Translation: CAI95196.1.
CH878453 Genomic DNA. Translation: EAW50550.1.
BC048285 mRNA. Translation: AAH48285.1.
CCDSiCCDS6786.1.
RefSeqiNP_149040.3. NM_033051.3.
UniGeneiHs.512668.

3D structure databases

ProteinModelPortaliQ9BY10.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi9606.ENSP00000363345.

Protein family/group databases

TCDBi2.A.1.50.2. the major facilitator superfamily (mfs).

PTM databases

iPTMnetiQ9BY10.
PhosphoSiteiQ9BY10.

Polymorphism and mutation databases

BioMutaiSLC46A2.
DMDMi83287921.

Proteomic databases

MaxQBiQ9BY10.
PaxDbiQ9BY10.
PRIDEiQ9BY10.

Protocols and materials databases

DNASUi57864.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000374228; ENSP00000363345; ENSG00000119457.
GeneIDi57864.
KEGGihsa:57864.
UCSCiuc004bgk.3. human.

Organism-specific databases

CTDi57864.
GeneCardsiSLC46A2.
HGNCiHGNC:16055. SLC46A2.
HPAiHPA020098.
HPA020104.
MIMi608956. gene.
neXtProtiNX_Q9BY10.
PharmGKBiPA162403790.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410ISYW. Eukaryota.
ENOG410YS8M. LUCA.
GeneTreeiENSGT00530000063076.
HOGENOMiHOG000231710.
HOVERGENiHBG054696.
InParanoidiQ9BY10.
KOiK14614.
OMAiYAVGHPP.
OrthoDBiEOG7DNNVC.
PhylomeDBiQ9BY10.
TreeFamiTF315701.

Miscellaneous databases

GenomeRNAii57864.
NextBioi64845.
PROiQ9BY10.
SOURCEiSearch...

Gene expression databases

BgeeiQ9BY10.
CleanExiHS_SLC46A2.
ExpressionAtlasiQ9BY10. baseline and differential.
GenevisibleiQ9BY10. HS.

Family and domain databases

InterProiIPR011701. MFS.
IPR020846. MFS_dom.
IPR001958. Tet-R_TetA/multi-R_MdtG.
[Graphical view]
PfamiPF07690. MFS_1. 1 hit.
[Graphical view]
PRINTSiPR01035. TCRTETA.
SUPFAMiSSF103473. SSF103473. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Characterization of the mouse gene, human promoter and human cDNA of TSCOT reveals strong interspecies homology."
    Chen C., Kim M.G., Lyu M.S., Kozak C.A., Schwartz R.H., Flomerfelt F.A.
    Biochim. Biophys. Acta 1493:159-169(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
    Tissue: Thymus.
  2. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Lung and Testis.
  3. "DNA sequence and analysis of human chromosome 9."
    Humphray S.J., Oliver K., Hunt A.R., Plumb R.W., Loveland J.E., Howe K.L., Andrews T.D., Searle S., Hunt S.E., Scott C.E., Jones M.C., Ainscough R., Almeida J.P., Ambrose K.D., Ashwell R.I.S., Babbage A.K., Babbage S., Bagguley C.L.
    , Bailey J., Banerjee R., Barker D.J., Barlow K.F., Bates K., Beasley H., Beasley O., Bird C.P., Bray-Allen S., Brown A.J., Brown J.Y., Burford D., Burrill W., Burton J., Carder C., Carter N.P., Chapman J.C., Chen Y., Clarke G., Clark S.Y., Clee C.M., Clegg S., Collier R.E., Corby N., Crosier M., Cummings A.T., Davies J., Dhami P., Dunn M., Dutta I., Dyer L.W., Earthrowl M.E., Faulkner L., Fleming C.J., Frankish A., Frankland J.A., French L., Fricker D.G., Garner P., Garnett J., Ghori J., Gilbert J.G.R., Glison C., Grafham D.V., Gribble S., Griffiths C., Griffiths-Jones S., Grocock R., Guy J., Hall R.E., Hammond S., Harley J.L., Harrison E.S.I., Hart E.A., Heath P.D., Henderson C.D., Hopkins B.L., Howard P.J., Howden P.J., Huckle E., Johnson C., Johnson D., Joy A.A., Kay M., Keenan S., Kershaw J.K., Kimberley A.M., King A., Knights A., Laird G.K., Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C., Lloyd D.M., Lovell J., Martin S., Mashreghi-Mohammadi M., Matthews L., McLaren S., McLay K.E., McMurray A., Milne S., Nickerson T., Nisbett J., Nordsiek G., Pearce A.V., Peck A.I., Porter K.M., Pandian R., Pelan S., Phillimore B., Povey S., Ramsey Y., Rand V., Scharfe M., Sehra H.K., Shownkeen R., Sims S.K., Skuce C.D., Smith M., Steward C.A., Swarbreck D., Sycamore N., Tester J., Thorpe A., Tracey A., Tromans A., Thomas D.W., Wall M., Wallis J.M., West A.P., Whitehead S.L., Willey D.L., Williams S.A., Wilming L., Wray P.W., Young L., Ashurst J.L., Coulson A., Blocker H., Durbin R.M., Sulston J.E., Hubbard T., Jackson M.J., Bentley D.R., Beck S., Rogers J., Dunham I.
    Nature 429:369-374(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  5. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Blood.

Entry informationi

Entry nameiTSCOT_HUMAN
AccessioniPrimary (citable) accession number: Q9BY10
Secondary accession number(s): B1ALK1, Q86VT0, Q96NE2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 2005
Last sequence update: June 1, 2001
Last modified: January 20, 2016
This is version 106 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 9
    Human chromosome 9: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.