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Protein

Sodium- and chloride-dependent glycine transporter 1

Gene

Slc6a9

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Terminates the action of glycine by its high affinity sodium-dependent reuptake into presynaptic terminals. May play a role in regulation of glycine levels in NMDA receptor-mediated neurotransmission.1 Publication

Kineticsi

  1. KM=123 µM for glycine1 Publication

Vmax=28 nmol/min/mg enzyme with glycine as substrate1 Publication

GO - Molecular functioni

  1. glycine transmembrane transporter activity Source: RGD
  2. neurotransmitter:sodium symporter activity Source: InterPro
  3. sodium:amino acid symporter activity Source: InterPro
Complete GO annotation...

Keywords - Biological processi

Amino-acid transport, Neurotransmitter transport, Symport, Transport

Enzyme and pathway databases

ReactomeiREACT_319222. Na+/Cl- dependent neurotransmitter transporters.

Protein family/group databases

TCDBi2.A.22.2.2. the neurotransmitter:sodium symporter (nss) family.

Names & Taxonomyi

Protein namesi
Recommended name:
Sodium- and chloride-dependent glycine transporter 1
Short name:
GlyT-1
Short name:
GlyT1
Alternative name(s):
Solute carrier family 6 member 9
Gene namesi
Name:Slc6a9
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494 Componenti: Chromosome 5

Organism-specific databases

RGDi621243. Slc6a9.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 4040CytoplasmicSequence AnalysisAdd
BLAST
Transmembranei41 – 6121Helical; Name=1Sequence AnalysisAdd
BLAST
Transmembranei68 – 8821Helical; Name=2Sequence AnalysisAdd
BLAST
Transmembranei120 – 14021Helical; Name=3Sequence AnalysisAdd
BLAST
Topological domaini141 – 21777ExtracellularSequence AnalysisAdd
BLAST
Transmembranei218 – 23821Helical; Name=4Sequence AnalysisAdd
BLAST
Transmembranei247 – 26721Helical; Name=5Sequence AnalysisAdd
BLAST
Transmembranei292 – 31221Helical; Name=6Sequence AnalysisAdd
BLAST
Transmembranei339 – 35921Helical; Name=7Sequence AnalysisAdd
BLAST
Transmembranei382 – 40221Helical; Name=8Sequence AnalysisAdd
BLAST
Transmembranei438 – 45821Helical; Name=9Sequence AnalysisAdd
BLAST
Transmembranei462 – 48221Helical; Name=10Sequence AnalysisAdd
BLAST
Transmembranei502 – 52221Helical; Name=11Sequence AnalysisAdd
BLAST
Transmembranei542 – 56221Helical; Name=12Sequence AnalysisAdd
BLAST
Topological domaini563 – 63876CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

  1. integral component of plasma membrane Source: InterPro
Complete GO annotation...

Keywords - Cellular componenti

Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 638638Sodium- and chloride-dependent glycine transporter 1PRO_0000214782Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi169 – 1691N-linked (GlcNAc...)Sequence Analysis
Glycosylationi172 – 1721N-linked (GlcNAc...)Sequence Analysis
Glycosylationi182 – 1821N-linked (GlcNAc...)Sequence Analysis
Glycosylationi188 – 1881N-linked (GlcNAc...)Sequence Analysis

Keywords - PTMi

Glycoprotein

Proteomic databases

PRIDEiP28572.

Miscellaneous databases

PMAP-CutDBQ63322.

Expressioni

Tissue specificityi

Isoform 1 is only found in the white matter of the CNS. Isoform 2 is found in the gray matter of CNS as well as in macrophages and mast cells in peripherical tissues.3 Publications

Gene expression databases

GenevestigatoriP28572.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
Dlg4P310164EBI-848796,EBI-375655

Protein-protein interaction databases

BioGridi250476. 1 interaction.
IntActiP28572. 2 interactions.
STRINGi10116.ENSRNOP00000026348.

Structurei

3D structure databases

ProteinModelPortaliP28572.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiCOG0733.
GeneTreeiENSGT00760000118857.
HOGENOMiHOG000116406.
HOVERGENiHBG071421.
InParanoidiP28572.
KOiK05038.
OMAiFQLCRTD.
OrthoDBiEOG793B71.
PhylomeDBiP28572.
TreeFamiTF343812.

Family and domain databases

InterProiIPR000175. Na/ntran_symport.
IPR003028. Na/ntran_symport_glycine_GLY1.
[Graphical view]
PANTHERiPTHR11616. PTHR11616. 1 hit.
PfamiPF00209. SNF. 1 hit.
[Graphical view]
PRINTSiPR01204. GLY1TRNSPORT.
PR00176. NANEUSMPORT.
PROSITEiPS00610. NA_NEUROTRAN_SYMP_1. 1 hit.
PS00754. NA_NEUROTRAN_SYMP_2. 1 hit.
PS50267. NA_NEUROTRAN_SYMP_3. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative promoter usage. AlignAdd to basket

Isoform 1 (identifier: P28572-2) [UniParc]FASTAAdd to basket

Also known as: GlyT-1B, GlyT-1

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MAVAHGPVAT SSPEQNGAVP SEATKKDQNL TRGNWGNQIE FVLTSVGYAV
60 70 80 90 100
GLGNVWRFPY LCYRNGGGAF MFPYFIMLVF CGIPLFFMEL SFGQFASQGC
110 120 130 140 150
LGVWRISPMF KGVGYGMMVV STYIGIYYNV VICIAFYYFF SSMTHVLPWA
160 170 180 190 200
YCNNPWNTPD CAGVLDASNL TNGSRPTALS GNLSHLFNYT LQRTSPSEEY
210 220 230 240 250
WRLYVLKLSD DIGDFGEVRL PLLGCLGVSW VVVFLCLIRG VKSSGKVVYF
260 270 280 290 300
TATFPYVVLT ILFVRGVTLE GAFTGIMYYL TPKWDKILEA KVWGDAASQI
310 320 330 340 350
FYSLGCAWGG LITMASYNKF HNNCYRDSVI ISITNCATSV YAGFVIFSIL
360 370 380 390 400
GFMANHLGVD VSRVADHGPG LAFVAYPEAL TLLPISPLWS LLFFFMLILL
410 420 430 440 450
GLGTQFCLLE TLVTAIVDEV GNEWILQKKT YVTLGVAVAG FLLGIPLTSQ
460 470 480 490 500
AGIYWLLLMD NYAASFSLVV ISCIMCVSIM YIYGHRNYFQ DIQMMLGFPP
510 520 530 540 550
PLFFQICWRF VSPTIIFFIL IFTVIQYRPI TYNHYQYPGW AVAIGFLMAL
560 570 580 590 600
SSVICIPLYA LFQLCRTDGD TLLQRLKNAT KPSRDWGPAL LEHRTGRYAP
610 620 630
TTTPSPEDGF EVQPLHPDKA QIPIVGSNGS SRLQDSRI
Length:638
Mass (Da):71,061
Last modified:May 17, 2010 - v2
Checksum:iAB43FCDE767F4AFA
GO
Isoform 2 (identifier: P28572-1) [UniParc]FASTAAdd to basket

Also known as: GlyT-1A, GlyT-2

The sequence of this isoform differs from the canonical sequence as follows:
     1-15: MAVAHGPVATSSPEQ → MVGKGAKGML

Show »
Length:633
Mass (Da):70,571
Checksum:i7D25B555B97E9E17
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti50 – 501V → W in AAC71066 (PubMed:9786914).Curated
Sequence conflicti50 – 501V → W in AAC71067 (PubMed:9786914).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 1515MAVAH…SSPEQ → MVGKGAKGML in isoform 2. 3 PublicationsVSP_039239Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M95413 mRNA. Translation: AAA41256.1.
M88595 mRNA. Translation: AAA41257.1.
L13600 mRNA. Translation: AAA73557.1.
BC128732 mRNA. Translation: AAI28733.1.
U28975 Genomic DNA. Translation: AAC71066.1.
U28975 Genomic DNA. Translation: AAC71067.1.
PIRiI58140.
JH0673.
RefSeqiNP_446270.1. NM_053818.2. [P28572-1]
XP_006238687.1. XM_006238625.2. [P28572-2]
UniGeneiRn.32110.

Genome annotation databases

EnsembliENSRNOT00000048770; ENSRNOP00000040252; ENSRNOG00000019484. [P28572-1]
GeneIDi116509.
KEGGirno:116509.

Keywords - Coding sequence diversityi

Alternative promoter usage

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M95413 mRNA. Translation: AAA41256.1.
M88595 mRNA. Translation: AAA41257.1.
L13600 mRNA. Translation: AAA73557.1.
BC128732 mRNA. Translation: AAI28733.1.
U28975 Genomic DNA. Translation: AAC71066.1.
U28975 Genomic DNA. Translation: AAC71067.1.
PIRiI58140.
JH0673.
RefSeqiNP_446270.1. NM_053818.2. [P28572-1]
XP_006238687.1. XM_006238625.2. [P28572-2]
UniGeneiRn.32110.

3D structure databases

ProteinModelPortaliP28572.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi250476. 1 interaction.
IntActiP28572. 2 interactions.
STRINGi10116.ENSRNOP00000026348.

Chemistry

BindingDBiP28572.
ChEMBLiCHEMBL4556.

Protein family/group databases

TCDBi2.A.22.2.2. the neurotransmitter:sodium symporter (nss) family.

Proteomic databases

PRIDEiP28572.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000048770; ENSRNOP00000040252; ENSRNOG00000019484. [P28572-1]
GeneIDi116509.
KEGGirno:116509.

Organism-specific databases

CTDi6536.
RGDi621243. Slc6a9.

Phylogenomic databases

eggNOGiCOG0733.
GeneTreeiENSGT00760000118857.
HOGENOMiHOG000116406.
HOVERGENiHBG071421.
InParanoidiP28572.
KOiK05038.
OMAiFQLCRTD.
OrthoDBiEOG793B71.
PhylomeDBiP28572.
TreeFamiTF343812.

Enzyme and pathway databases

ReactomeiREACT_319222. Na+/Cl- dependent neurotransmitter transporters.

Miscellaneous databases

NextBioi619129.
PMAP-CutDBQ63322.
PROiP28572.

Gene expression databases

GenevestigatoriP28572.

Family and domain databases

InterProiIPR000175. Na/ntran_symport.
IPR003028. Na/ntran_symport_glycine_GLY1.
[Graphical view]
PANTHERiPTHR11616. PTHR11616. 1 hit.
PfamiPF00209. SNF. 1 hit.
[Graphical view]
PRINTSiPR01204. GLY1TRNSPORT.
PR00176. NANEUSMPORT.
PROSITEiPS00610. NA_NEUROTRAN_SYMP_1. 1 hit.
PS00754. NA_NEUROTRAN_SYMP_2. 1 hit.
PS50267. NA_NEUROTRAN_SYMP_3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Cloning, expression, and localization of a rat brain high-affinity glycine transporter."
    Guastella J., Brecha N., Weigmann C., Lester H.A., Davidson N.
    Proc. Natl. Acad. Sci. U.S.A. 89:7189-7193(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), TISSUE SPECIFICITY.
    Strain: Sprague-Dawley.
    Tissue: Brain.
  2. "Cloning and expression of a glycine transporter reveal colocalization with NMDA receptors."
    Smith K.E., Borden L.A., Hartig P.R., Branchek T.A., Weinshank R.L.
    Neuron 8:927-935(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, BIOPHYSICOCHEMICAL PROPERTIES, TISSUE SPECIFICITY.
    Tissue: Brain.
  3. "Two glycine transporter variants with distinct localization in the CNS and peripheral tissues are encoded by a common gene."
    Borowsky B., Mezey E., Hoffman B.J.
    Neuron 10:851-863(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), TISSUE SPECIFICITY.
    Tissue: Blood.
  4. "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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Brain.
  5. "Analysis of a gene encoding two glycine transporter variants reveals alternative promoter usage and a novel gene structure."
    Borowsky B., Hoffman B.J.
    J. Biol. Chem. 273:29077-29085(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-67 (ISOFORMS 1 AND 2), ALTERNATIVE PROMOTER USAGE.
    Strain: Sprague-Dawley.
    Tissue: Brain.

Entry informationi

Entry nameiSC6A9_RAT
AccessioniPrimary (citable) accession number: P28572
Secondary accession number(s): A1A5N0, Q63322, Q63323
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 30, 1992
Last sequence update: May 17, 2010
Last modified: March 31, 2015
This is version 122 of the entry and version 2 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

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 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.