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Q9HBG7 (LY9_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified March 19, 2014. Version 111. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (6) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended 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 names
Name:LY9
ORF Names:CDABP0070
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length655 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

May participate in adhesion reactions between T lymphocytes and accessory cells by homophilic interaction.

Subcellular location

Membrane; Single-pass type I membrane protein.

Sequence similarities

Contains 2 Ig-like C2-type (immunoglobulin-like) domains.

Contains 2 Ig-like V-type (immunoglobulin-like) domains.

Sequence caution

The sequence CAH72360.1 differs from that shown. Reason: Erroneous gene model prediction.

The sequence CAH73509.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
   Biological processCell adhesion
   Cellular componentMembrane
   Coding sequence diversityAlternative splicing
Polymorphism
   DomainImmunoglobulin domain
Repeat
Signal
Transmembrane
Transmembrane helix
   PTMDisulfide bond
Glycoprotein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processcell adhesion

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular_componentintegral component of membrane

Inferred from electronic annotation. Source: UniProtKB-KW

   Molecular_functionreceptor activity

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Alternative products

This entry describes 4 isoforms produced by alternative splicing. [Align] [Select]

Note: Experimental confirmation may be lacking for some isoforms.
Isoform 1 (identifier: Q9HBG7-1)

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.
Isoform 2 (identifier: Q9HBG7-2)

The sequence of this isoform differs from the canonical sequence as follows:
     500-513: Missing.
Isoform 3 (identifier: Q9HBG7-3)

The sequence of this isoform differs from the canonical sequence as follows:
     359-448: Missing.
     500-513: Missing.
     524-554: PARQQPTPTSDSSSDSNLTTEEDEDRPEVHK → Q
Isoform 4 (identifier: Q9HBG7-4)

The sequence of this isoform differs from the canonical sequence as follows:
     152-193: EQLQEPQVTM...EKSVLYSWTP → APFIEKLSVH...AEPRVSVREG
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 4747 Potential
Chain48 – 655608T-lymphocyte surface antigen Ly-9
PRO_0000014851

Regions

Topological domain48 – 454407Extracellular Potential
Transmembrane455 – 47622Helical; Potential
Topological domain477 – 655179Cytoplasmic Potential
Domain48 – 158111Ig-like V-type 1
Domain159 – 23577Ig-like C2-type 1
Domain251 – 363113Ig-like V-type 2
Domain364 – 45289Ig-like C2-type 2

Amino acid modifications

Glycosylation681N-linked (GlcNAc...) Potential
Glycosylation951N-linked (GlcNAc...) Potential
Glycosylation1201N-linked (GlcNAc...) Potential
Glycosylation1691N-linked (GlcNAc...) Potential
Glycosylation1731N-linked (GlcNAc...) Potential
Glycosylation2851N-linked (GlcNAc...) Ref.8
Glycosylation4131N-linked (GlcNAc...) Potential
Glycosylation4241N-linked (GlcNAc...) Potential
Disulfide bond172 ↔ 242 Potential
Disulfide bond178 ↔ 222 Potential
Disulfide bond377 ↔ 446 Potential
Disulfide bond383 ↔ 427 Potential

Natural variations

Alternative sequence152 – 19342EQLQE…YSWTP → APFIEKLSVHVIEGDHRTLL EGSGLESIISTLAEPRVSVR EG in isoform 4.
VSP_043328
Alternative sequence359 – 44890Missing in isoform 3.
VSP_002524
Alternative sequence500 – 51314Missing in isoform 2 and isoform 3.
VSP_002525
Alternative sequence524 – 55431PARQQ…PEVHK → Q in isoform 3.
VSP_002526
Natural variant6021M → V. Ref.1 Ref.6
Corresponds to variant rs509749 [ dbSNP | Ensembl ].
VAR_033612

Experimental info

Sequence conflict1711Missing in AAG14995. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified July 19, 2005. Version 3.
Checksum: 84ABA3056D69E80A

FASTA65572,139
        10         20         30         40         50         60 
MVAPKSHTDD WAPGPFSSKP QRSQLQIFSS VLQTSLLFLL MGLRASGKDS APTVVSGILG 

        70         80         90        100        110        120 
GSVTLPLNIS VDTEIENVIW IGPKNALAFA RPKENVTIMV KSYLGRLDIT KWSYSLCISN 

       130        140        150        160        170        180 
LTLNDAGSYK AQINQRNFEV TTEEEFTLFV YEQLQEPQVT MKSVKVSENF SCNITLMCSV 

       190        200        210        220        230        240 
KGAEKSVLYS WTPREPHASE SNGGSILTVS RTPCDPDLPY ICTAQNPVSQ RSSLPVHVGQ 

       250        260        270        280        290        300 
FCTDPGASRG GTTGETVVGV LGEPVTLPLA LPACRDTEKV VWLFNTSIIS KEREEAATAD 

       310        320        330        340        350        360 
PLIKSRDPYK NRVWVSSQDC SLKISQLKIE DAGPYHAYVC SEASSVTSMT HVTLLIYRRL 

       370        380        390        400        410        420 
RKPKITWSLR HSEDGICRIS LTCSVEDGGN TVMYTWTPLQ KEAVVSQGES HLNVSWRSSE 

       430        440        450        460        470        480 
NHPNLTCTAS NPVSRSSHQF LSENICSGPE RNTKLWIGLF LMVCLLCVGI FSWCIWKRKG 

       490        500        510        520        530        540 
RCSVPAFCSS QAEAPADTPE PTAGHTLYSV LSQGYEKLDT PLRPARQQPT PTSDSSSDSN 

       550        560        570        580        590        600 
LTTEEDEDRP EVHKPISGRY EVFDQVTQEG AGHDPAPEGQ ADYDPVTPYV TEVESVVGEN 

       610        620        630        640        650 
TMYAQVFNLQ GKTPVSQKEE SSATIYCSIR KPQVVPPPQQ NDLEIPESPT YENFT 

« Hide

Isoform 2 [UniParc].

Checksum: 8649951FCE64465C
Show »

FASTA64170,655
Isoform 3 [UniParc].

Checksum: 615B60DC9AB6766E
Show »

FASTA52157,320
Isoform 4 [UniParc].

Checksum: B096694A12285C5C
Show »

FASTA65571,961

References

« Hide 'large scale' references
[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 [MRNA] (ISOFORM 1), VARIANT VAL-602.
[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. expand/collapse author list , 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] (ISOFORM 1).
Tissue: Spleen.
[3]"The DNA sequence and biological annotation of human chromosome 1."
Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K. expand/collapse author list , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.
Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[4]Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. expand/collapse author list , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C.
Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases
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] (ISOFORM 4).
Tissue: Blood.
[6]"Isolation and characterization of cDNA clones for Humly9: the human homologue of mouse Ly9."
Sandrin M.S., Henning M.M., Lo M.F., Baker E., Sutherland G.R., McKenzie I.F.
Immunogenetics 43:13-19(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 32-654 (ISOFORM 2), VARIANT VAL-602.
[7]"Pediatric leukemia cDNA sequencing project."
Zhou J., Yu W., Tang H., Mei G., Tsang Y.T.M., Bouck J., Gibbs R.A., Margolin J.F.
Submitted (JUL-2000) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 99-655 (ISOFORM 3).
Tissue: Leukemia.
[8]"Mass-spectrometric identification and relative quantification of N-linked cell surface glycoproteins."
Wollscheid B., Bausch-Fluck D., Henderson C., O'Brien R., Bibel M., Schiess R., Aebersold R., Watts J.D.
Nat. Biotechnol. 27:378-386(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-285.
Tissue: Leukemic T-cell.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF244129 mRNA. Translation: AAG14995.1.
AK292048 mRNA. Translation: BAF84737.1.
AL354714, AL121985 Genomic DNA. Translation: CAH72360.1. Sequence problems.
AL121985, AL354714 Genomic DNA. Translation: CAH73509.1. Sequence problems.
AL121985 Genomic DNA. Translation: CAH73510.1.
CH471121 Genomic DNA. Translation: EAW52699.1.
BC064485 mRNA. Translation: AAH64485.1.
L42621 mRNA. Translation: AAA92623.1.
AY007142 mRNA. Translation: AAG02002.1.
RefSeqNP_001028839.1. NM_001033667.2.
NP_001248385.1. NM_001261456.1.
NP_002339.2. NM_002348.3.
UniGeneHs.403857.

3D structure databases

ProteinModelPortalQ9HBG7.
SMRQ9HBG7. Positions 49-243, 257-446.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid110241. 4 interactions.
IntActQ9HBG7. 1 interaction.
STRING9606.ENSP00000357020.

PTM databases

PhosphoSiteQ9HBG7.

Polymorphism databases

DMDM71152965.

Proteomic databases

PaxDbQ9HBG7.
PRIDEQ9HBG7.

Protocols and materials databases

DNASU4063.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000263285; ENSP00000263285; ENSG00000122224. [Q9HBG7-1]
ENST00000368037; ENSP00000357016; ENSG00000122224. [Q9HBG7-2]
ENST00000368039; ENSP00000357018; ENSG00000122224.
GeneID4063.
KEGGhsa:4063.
UCSCuc001fwu.4. human. [Q9HBG7-1]
uc001fwv.4. human. [Q9HBG7-2]

Organism-specific databases

CTD4063.
GeneCardsGC01P160765.
HGNCHGNC:6730. LY9.
HPAHPA050917.
MIM600684. gene.
neXtProtNX_Q9HBG7.
PharmGKBPA30494.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG150167.
HOGENOMHOG000013143.
HOVERGENHBG030765.
KOK06570.
OrthoDBEOG77HDFC.
PhylomeDBQ9HBG7.
TreeFamTF334964.

Gene expression databases

ArrayExpressQ9HBG7.
BgeeQ9HBG7.
CleanExHS_LY9.
GenevestigatorQ9HBG7.

Family and domain databases

Gene3D2.60.40.10. 4 hits.
InterProIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR015631. SLAM_fam_rcpts.
[Graphical view]
PANTHERPTHR12080. PTHR12080. 1 hit.
SMARTSM00409. IG. 2 hits.
[Graphical view]
PROSITEPS50835. IG_LIKE. 2 hits.
[Graphical view]
ProtoNetSearch...

Other

GeneWikiLY9.
GenomeRNAi4063.
NextBio15926.
PROQ9HBG7.
SOURCESearch...

Entry information

Entry nameLY9_HUMAN
AccessionPrimary (citable) accession number: Q9HBG7
Secondary accession number(s): A8K7N3 expand/collapse secondary AC list , Q14775, Q5VYI3, Q6P2J4, Q9H4N5, Q9NQ24
Entry history
Integrated into UniProtKB/Swiss-Prot: June 20, 2002
Last sequence update: July 19, 2005
Last modified: March 19, 2014
This is version 111 of the entry and version 3 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 1

Human chromosome 1: entries, gene names and cross-references to MIM

Human cell differentiation molecules

CD nomenclature of surface proteins of human leucocytes and list of entries