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Protein

T-lymphocyte surface antigen Ly-9

Gene

Ly9

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Self-ligand receptor of the signaling lymphocytic activation molecule (SLAM) family. SLAM receptors triggered by homo- or heterotypic cell-cell interactions are modulating the activation and differentiation of a wide variety of immune cells and thus are involved in the regulation and interconnection of both innate and adaptive immune response. Activities are controlled by presence or absence of small cytoplasmic adapter proteins, SH2D1A/SAP and/or SH2D1B/EAT-2 (PubMed:19648922). May participate in adhesion reactions between T lymphocytes and accessory cells by homophilic interaction. Promotes T-cell differentiation into a helper T-cell Th17 phenotype leading to increased IL-17 secretion; the costimulatory activity requires SH2D1A. Promotes recruitment of RORC to the IL-17 promoter (By similarity). May be involved in the maintenance of peripheral cell tolerance by serving as a negative regulator of the immune response. May disable autoantibody responses and inhibit IFN-gamma secretion by CD4+ T-cells (PubMed:23914190). May negatively regulate the size of thymic innate CD8+ T-cells and the development of invariant natural killer T (iNKT) cells (PubMed:23225888). Can promote natural killer (NK) cell activation (PubMed:19648922).By similarity3 Publications

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Adaptive immunity, Cell adhesion, Immunity, Innate immunity

Names & Taxonomyi

Protein namesi
Recommended name:
T-lymphocyte surface antigen Ly-9
Alternative name(s):
Cell surface molecule Ly-9
Lymphocyte antigen 9
SLAM family member 3
Short name:
SLAMF3
Signaling lymphocytic activation molecule 3
CD_antigen: CD229
Gene namesi
Name:Ly9
Synonyms:Ly-9
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 1

Organism-specific databases

MGIiMGI:96885. Ly9.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini48 – 453406ExtracellularSequence analysisAdd
BLAST
Transmembranei454 – 47421HelicalSequence analysisAdd
BLAST
Topological domaini475 – 654180CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

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

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 47471 PublicationAdd
BLAST
Chaini48 – 654607T-lymphocyte surface antigen Ly-9PRO_0000014852Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi68 – 681N-linked (GlcNAc...)Sequence analysis
Glycosylationi120 – 1201N-linked (GlcNAc...)Sequence analysis
Disulfide bondi172 ↔ 242PROSITE-ProRule annotation
Disulfide bondi178 ↔ 222PROSITE-ProRule annotation
Glycosylationi231 – 2311N-linked (GlcNAc...)Sequence analysis
Glycosylationi284 – 2841N-linked (GlcNAc...)Sequence analysis
Disulfide bondi376 ↔ 445PROSITE-ProRule annotation
Disulfide bondi382 ↔ 426PROSITE-ProRule annotation
Glycosylationi390 – 3901N-linked (GlcNAc...)Sequence analysis
Glycosylationi412 – 4121N-linked (GlcNAc...)Sequence analysis
Glycosylationi423 – 4231N-linked (GlcNAc...)Sequence analysis
Glycosylationi434 – 4341N-linked (GlcNAc...)Sequence analysis
Modified residuei499 – 4991PhosphothreonineCombined sources

Keywords - PTMi

Disulfide bond, Glycoprotein, Phosphoprotein

Proteomic databases

EPDiQ01965.
MaxQBiQ01965.
PaxDbiQ01965.
PRIDEiQ01965.

PTM databases

iPTMnetiQ01965.
PhosphoSiteiQ01965.
SwissPalmiQ01965.

Expressioni

Tissue specificityi

Lymphocytes.

Gene expression databases

BgeeiQ01965.
CleanExiMM_LY9.
ExpressionAtlasiQ01965. baseline and differential.
GenevisibleiQ01965. MM.

Interactioni

Subunit structurei

Interacts with SH2D1A and INPP5D. Interacts (via phosphorylated cytoplasmic domain) with PTPN11; the interaction is blocked by SH2D1A.By similarity

Protein-protein interaction databases

IntActiQ01965. 2 interactions.
STRINGi10090.ENSMUSP00000069319.

Structurei

3D structure databases

ProteinModelPortaliQ01965.
SMRiQ01965. Positions 55-153, 256-445.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini48 – 158111Ig-like V-type 1Add
BLAST
Domaini159 – 24385Ig-like C2-type 1Add
BLAST
Domaini250 – 362113Ig-like V-type 2Add
BLAST
Domaini353 – 453101Ig-like C2-type 2Add
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi599 – 6046ITSM 1 (atypical)By similarity
Motifi623 – 6286ITSM 2By similarity

Domaini

The ITSMs (immunoreceptor tyrosine-based switch motifs) with the consensus sequence T-X-Y-X-X-[VI] present in SLAM family receptors have overlapping specificity for activating and inhibitory SH2 domain-containing binding partners. Especially they mediate the interaction with the SH2 domain of SH2D1A and SH2D1B. A 'three-pronged' mechanism is proposed involving threonine (position -2), phosphorylated tyrosine (position 0) and valine/isoleucine (position +3).By similarity

Sequence similaritiesi

Keywords - Domaini

Immunoglobulin domain, Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410JJ3F. Eukaryota.
ENOG410ZAYK. LUCA.
GeneTreeiENSGT00530000063114.
HOGENOMiHOG000013143.
HOVERGENiHBG030765.
InParanoidiQ01965.
KOiK06570.
OMAiYHAYVCS.
OrthoDBiEOG77HDFC.
PhylomeDBiQ01965.
TreeFamiTF334964.

Family and domain databases

Gene3Di2.60.40.10. 3 hits.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
[Graphical view]
PfamiPF13895. Ig_2. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 2 hits.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 4 hits.
PROSITEiPS50835. IG_LIKE. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q01965-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MADLKRYWCD WALGPLSENP RMSQQQIFSP ILWIPLLFLL MGLGASGKET
60 70 80 90 100
PPTVISGMLG GSVTFSLNIS KDAEIEHIIW NCPPKALALV FYKKDITILD
110 120 130 140 150
KGYNGRLKVS EDGYSLYMSN LTKSDSGSYH AQINQKNVIL TTNKEFTLHI
160 170 180 190 200
YEKLQKPQII VESVTPSDTD SCTFTLICTV KGTKDSVQYS WTREDTHLNT
210 220 230 240 250
YDGSHTLRVS QSVCDPDLPY TCKAWNPVSQ NSSQPVRIWQ FCTGASRRKT
260 270 280 290 300
AAGKTVVGIL GEPVTLPLEF RATRATKNVV WVFNTSVISQ ERRGAATADS
310 320 330 340 350
RRKPKGSEER RVRTSDQDQS LKISQLKMED AGPYHAYVCS EASRDPSVRH
360 370 380 390 400
FTLLVYKRLE KPSVTKSPVH MMNGICEVVL TCSVDGGGNN VTYTWMPLQN
410 420 430 440 450
KAVMSQGKSH LNVSWESGEH LPNFTCTAHN PVSNSSSQFS SGTICSGPER
460 470 480 490 500
NKRFWLLLLL VLLLLMLIGG YFILRKKKQC SSLATRYRQA EVPAEIPETP
510 520 530 540 550
TGHGQFSVLS QRYEKLDMSA KTTRHQPTPT SDTSSESSAT TEEDDEKTRM
560 570 580 590 600
HSTANSRNQV YDLVTHQDIA HALAYEGQVE YEAITPYDKV DGSMDEEDMA
610 620 630 640 650
YIQVSLNVQG ETPLPQKKED SNTIYCSVQK PKKTAQTPQQ DAESPETPTY

ENFT
Length:654
Mass (Da):73,143
Last modified:June 20, 2002 - v2
Checksum:i1CBBE99708AE8EE7
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti283 – 2831F → L in AAA39468 (PubMed:1506686).Curated
Sequence conflicti499 – 4991T → P in AAA39468 (PubMed:1506686).Curated
Sequence conflicti560 – 5601V → L in AAA39468 (PubMed:1506686).Curated
Sequence conflicti647 – 6548TPTYENFT → SPYL in AAA39468 (PubMed:1506686).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti10 – 101D → G in Ly9-1.
Natural varianti14 – 141G → S in Ly9-1.
Natural varianti79 – 791I → T in Ly9-1.
Natural varianti91 – 911F → S in Ly9-1.
Natural varianti130 – 1301H → Y in Ly9-1.
Natural varianti139 – 1391I → T in Ly9-1.
Natural varianti362 – 3621P → S.
Natural varianti366 – 3661K → N in Ly9-1.
Natural varianti377 – 3771E → K in Ly9-1.
Natural varianti550 – 5501M → I in Ly9-1.
Natural varianti592 – 5921G → E in Ly9-1.

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF244131 mRNA. Translation: AAG14997.1.
AF244130 mRNA. Translation: AAG14996.1.
AF246701
, AF245117, AF245506, AF245118, AF245507, AF245508, AF245509, AF245510, AF246699, AF246700 Genomic DNA. Translation: AAG13268.2.
M84412 mRNA. Translation: AAA39468.1.
CCDSiCCDS35779.1.
RefSeqiNP_001264897.1. NM_001277968.1.
NP_032560.2. NM_008534.3.
UniGeneiMm.560.

Genome annotation databases

EnsembliENSMUST00000068878; ENSMUSP00000069319; ENSMUSG00000004707.
GeneIDi17085.
KEGGimmu:17085.
UCSCiuc007dou.2. mouse.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF244131 mRNA. Translation: AAG14997.1.
AF244130 mRNA. Translation: AAG14996.1.
AF246701
, AF245117, AF245506, AF245118, AF245507, AF245508, AF245509, AF245510, AF246699, AF246700 Genomic DNA. Translation: AAG13268.2.
M84412 mRNA. Translation: AAA39468.1.
CCDSiCCDS35779.1.
RefSeqiNP_001264897.1. NM_001277968.1.
NP_032560.2. NM_008534.3.
UniGeneiMm.560.

3D structure databases

ProteinModelPortaliQ01965.
SMRiQ01965. Positions 55-153, 256-445.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ01965. 2 interactions.
STRINGi10090.ENSMUSP00000069319.

PTM databases

iPTMnetiQ01965.
PhosphoSiteiQ01965.
SwissPalmiQ01965.

Proteomic databases

EPDiQ01965.
MaxQBiQ01965.
PaxDbiQ01965.
PRIDEiQ01965.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000068878; ENSMUSP00000069319; ENSMUSG00000004707.
GeneIDi17085.
KEGGimmu:17085.
UCSCiuc007dou.2. mouse.

Organism-specific databases

CTDi4063.
MGIiMGI:96885. Ly9.

Phylogenomic databases

eggNOGiENOG410JJ3F. Eukaryota.
ENOG410ZAYK. LUCA.
GeneTreeiENSGT00530000063114.
HOGENOMiHOG000013143.
HOVERGENiHBG030765.
InParanoidiQ01965.
KOiK06570.
OMAiYHAYVCS.
OrthoDBiEOG77HDFC.
PhylomeDBiQ01965.
TreeFamiTF334964.

Miscellaneous databases

ChiTaRSiLy9. mouse.
NextBioi291220.
PROiQ01965.
SOURCEiSearch...

Gene expression databases

BgeeiQ01965.
CleanExiMM_LY9.
ExpressionAtlasiQ01965. baseline and differential.
GenevisibleiQ01965. MM.

Family and domain databases

Gene3Di2.60.40.10. 3 hits.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
[Graphical view]
PfamiPF13895. Ig_2. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 2 hits.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 4 hits.
PROSITEiPS50835. IG_LIKE. 2 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Gene structure of the mouse leukocyte cell surface molecule Ly9."
    Tovar V., de la Fuente M.A., Pizcueta P., Bosch J., Engel P.
    Immunogenetics 51:788-793(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], POLYMORPHISM.
    Strain: 129/Sv, BALB/cJ and C57BL/6.
    Tissue: Spleen.
  2. "Isolation and characterization of cDNA clones for mouse Ly-9."
    Sandrin M.S., Gumley T.P., Henning M.M., Vaughan H.A., Gonez L.J., Trapani J.A., McKenzie I.F.C.
    J. Immunol. 149:1636-1641(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 22-654, PROTEIN SEQUENCE OF 48-59.
  3. "The phagosomal proteome in interferon-gamma-activated macrophages."
    Trost M., English L., Lemieux S., Courcelles M., Desjardins M., Thibault P.
    Immunity 30:143-154(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-499, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  4. "Essential function for SAP family adaptors in the surveillance of hematopoietic cells by natural killer cells."
    Dong Z., Cruz-Munoz M.E., Zhong M.C., Chen R., Latour S., Veillette A.
    Nat. Immunol. 10:973-980(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  5. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Spleen.
  6. "Ly9 (CD229) cell-surface receptor is crucial for the development of spontaneous autoantibody production to nuclear antigens."
    de Salort J., Cuenca M., Terhorst C., Engel P., Romero X.
    Front. Immunol. 4:225-225(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  7. "Ly9 (CD229), a SLAM family receptor, negatively regulates the development of thymic innate memory-like CD8+ T and invariant NKT cells."
    Sintes J., Cuenca M., Romero X., Bastos R., Terhorst C., Angulo A., Engel P.
    J. Immunol. 190:21-26(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.

Entry informationi

Entry nameiLY9_MOUSE
AccessioniPrimary (citable) accession number: Q01965
Secondary accession number(s): Q9ES29, Q9ES35, Q9ES36
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: June 20, 2002
Last modified: April 13, 2016
This is version 135 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, Direct protein sequencing, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. 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.